Cannot compile in cmdstanr with compile_model_methods = TRUE

wpetry · March 12, 2024, 7:42pm

Attempting to compile model methods fails with three errors that seem to stem from ambiguity in tbb::split (full text below). The same model successfully compiles when compile_model_methods = FALSE. This is preventing me from using Aki Vehtari’s functions for using Pathfinder to choose initial values for a time-consuming model.

I’m not sure if this is a true bug or simply a system-specific setting that I need to add/change.

reprex:

# run previously: cmdstanr::rebuild_cmdstan()

library(cmdstanr)

file <- file.path(cmdstan_path(), "examples", "bernoulli", "bernoulli.stan")
mod <- cmdstan_model(file)  ## compiles successfully

modmm <- cmdstan_model(file, compile_model_methods = TRUE, force_recompile = TRUE)  ## fails with error (see below)

Full error text

using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include" -I"/private/var/folders/04/jbnbgfsj0y537r7cr7180dx40000gq/T/Rtmp8nes6X/sourceCpp-aarch64-apple-darwin20-1.0.12" -I/opt/homebrew/include   -Wno-deprecated-declarations -std=c++1y -Wno-unknown-warning-option -Wno-tautological-compare -Wno-sign-compare -D_REENTRANT -Wno-ignored-attributes -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include' -O3 -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/src' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/rapidjson_1.1.0/' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/lib/CLI11-1.9.1/' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/eigen_3.4.0' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/boost_1.81.0' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/sundials_6.1.1/include' -I'/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/sundials_6.1.1/src/sundials' -I"/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/cmdstanr/include" -fPIC  -I/opt/homebrew/include -c file329153ecf53e.cpp -o file329153ecf53e.o
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:228:9: warning: '__TBB_CPP14_INTEGER_SEQUENCE_PRESENT' macro redefined [-Wmacro-redefined]
#define __TBB_CPP14_INTEGER_SEQUENCE_PRESENT       (__TBB_LANG >= 201402L)
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:235:13: note: previous definition is here
    #define __TBB_CPP14_INTEGER_SEQUENCE_PRESENT            (__cplusplus >= 201402L)
            ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:243:17: warning: '__TBB_CPP17_DEDUCTION_GUIDES_PRESENT' macro redefined [-Wmacro-redefined]
        #define __TBB_CPP17_DEDUCTION_GUIDES_PRESENT 0
                ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:237:13: note: previous definition is here
    #define __TBB_CPP17_DEDUCTION_GUIDES_PRESENT            (__has_feature(__cpp_deduction_guides))
            ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:264:9: warning: '__TBB_CPP17_MEMORY_RESOURCE_PRESENT' macro redefined [-Wmacro-redefined]
#define __TBB_CPP17_MEMORY_RESOURCE_PRESENT             (_MSC_VER >= 1913 && (__TBB_LANG > 201402L) || \
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:352:9: note: previous definition is here
#define __TBB_CPP17_MEMORY_RESOURCE_PRESENT                 (_MSC_VER >= 1913 && (_MSVC_LANG > 201402L || __cplusplus > 201402L) || \
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:313:9: warning: '__TBB_CPP17_FALLTHROUGH_PRESENT' macro redefined [-Wmacro-redefined]
#define __TBB_CPP17_FALLTHROUGH_PRESENT (__TBB_LANG >= 201703L)
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:151:9: note: previous definition is here
#define __TBB_CPP17_FALLTHROUGH_PRESENT (__cplusplus >= 201703L)
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:336:9: warning: '__TBB_TSX_INTRINSICS_PRESENT' macro redefined [-Wmacro-redefined]
#define __TBB_TSX_INTRINSICS_PRESENT (__RTM__ || __INTEL_COMPILER || (_MSC_VER>=1700 && (__TBB_x86_64 || __TBB_x86_32)))
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:404:9: note: previous definition is here
#define __TBB_TSX_INTRINSICS_PRESENT ((__RTM__ || _MSC_VER>=1700 || __INTEL_COMPILER>=1300) && !__TBB_DEFINE_MIC && !__ANDROID__)
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:20:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_config.h:514:9: warning: '__TBB_PREVIEW_MESSAGE_BASED_KEY_MATCHING' macro redefined [-Wmacro-redefined]
#define __TBB_PREVIEW_MESSAGE_BASED_KEY_MATCHING (TBB_PREVIEW_FLOW_GRAPH_FEATURES)
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_config.h:852:9: note: previous definition is here
#define __TBB_PREVIEW_MESSAGE_BASED_KEY_MATCHING (TBB_PREVIEW_FLOW_GRAPH_FEATURES || __TBB_PREVIEW_OPENCL_NODE)
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core.hpp:10:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/chainable_object.hpp:6:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/typedefs.hpp:7:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/core/Eigen_NumTraits.hpp:5:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/core/init_threadpool_tbb.hpp:17:
In file included from /opt/homebrew/include/tbb/global_control.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/global_control.h:22:
/opt/homebrew/include/tbb/../oneapi/tbb/detail/_assert.h:46:9: warning: '__TBB_ASSERT_RELEASE' macro redefined [-Wmacro-redefined]
#define __TBB_ASSERT_RELEASE(predicate,message) ((predicate)?((void)0) : tbb::detail::r1::assertion_failure(__func__,__LINE__,#predicate,message))
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:134:10: note: previous definition is here
 #define __TBB_ASSERT_RELEASE(predicate,message) ((predicate)?((void)0) : tbb::assertion_failure(__FILE__,__LINE__,#predicate,message))
         ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:9:
In file included from /opt/homebrew/include/tbb/parallel_reduce.h:17:
/opt/homebrew/include/tbb/../oneapi/tbb/parallel_reduce.h:386:57: error: reference to 'split' is ambiguous
    lambda_reduce_body( lambda_reduce_body& other, tbb::split )
                                                        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:416:7: note: candidate found by name lookup is 'tbb::split'
class split {
      ^
/opt/homebrew/include/tbb/../oneapi/tbb/partitioner.h:667:15: note: candidate found by name lookup is 'tbb::v1::split'
using detail::split;
              ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:10:
In file included from /opt/homebrew/include/tbb/blocked_range.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/blocked_range.h:25:
/opt/homebrew/include/tbb/../oneapi/tbb/version.h:30:9: warning: 'TBB_VERSION_MAJOR' macro redefined [-Wmacro-redefined]
#define TBB_VERSION_MAJOR 2021
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:21:9: note: previous definition is here
#define TBB_VERSION_MAJOR 2020
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:10:
In file included from /opt/homebrew/include/tbb/blocked_range.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/blocked_range.h:25:
/opt/homebrew/include/tbb/../oneapi/tbb/version.h:32:9: warning: 'TBB_VERSION_MINOR' macro redefined [-Wmacro-redefined]
#define TBB_VERSION_MINOR 11
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:22:9: note: previous definition is here
#define TBB_VERSION_MINOR 3
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:10:
In file included from /opt/homebrew/include/tbb/blocked_range.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/blocked_range.h:25:
/opt/homebrew/include/tbb/../oneapi/tbb/version.h:43:9: warning: 'TBB_INTERFACE_VERSION' macro redefined [-Wmacro-redefined]
#define TBB_INTERFACE_VERSION 12110
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:25:9: note: previous definition is here
#define TBB_INTERFACE_VERSION 11103
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:10:
In file included from /opt/homebrew/include/tbb/blocked_range.h:17:
In file included from /opt/homebrew/include/tbb/../oneapi/tbb/blocked_range.h:25:
/opt/homebrew/include/tbb/../oneapi/tbb/version.h:45:9: warning: 'TBB_INTERFACE_VERSION_MAJOR' macro redefined [-Wmacro-redefined]
#define TBB_INTERFACE_VERSION_MAJOR (TBB_INTERFACE_VERSION/1000)
        ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:26:9: note: previous definition is here
#define TBB_INTERFACE_VERSION_MAJOR TBB_INTERFACE_VERSION/1000
        ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:12:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/fun.hpp:200:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor.hpp:30:
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/prim/functor/reduce_sum.hpp:62:54: error: reference to 'split' is ambiguous
    recursive_reducer(recursive_reducer& other, tbb::split)
                                                     ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:416:7: note: candidate found by name lookup is 'tbb::split'
class split {
      ^
/opt/homebrew/include/tbb/../oneapi/tbb/blocked_range.h:164:15: note: candidate found by name lookup is 'tbb::v1::split'
using detail::split;
              ^
In file included from file329153ecf53e.cpp:2:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/src/stan/model/model_header.hpp:4:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math.hpp:19:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev.hpp:13:
In file included from /Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/functor.hpp:30:
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/stan/math/rev/functor/reduce_sum.hpp:77:54: error: reference to 'split' is ambiguous
    recursive_reducer(recursive_reducer& other, tbb::split)
                                                     ^
/Users/wpetry/.cmdstan/cmdstan-2.34.1/stan/lib/stan_math/lib/tbb_2020.3/include/tbb/tbb_stddef.h:416:7: note: candidate found by name lookup is 'tbb::split'
class split {
      ^
/opt/homebrew/include/tbb/../oneapi/tbb/parallel_for.h:463:15: note: candidate found by name lookup is 'tbb::v1::split'
using detail::split;
              ^
11 warnings and 3 errors generated.
make: *** [file329153ecf53e.o] Error 1
Error in Rcpp::sourceCpp(code = code, env = env, verbose = verbose) : 
  Error 1 occurred building shared library.

Operating System: OSX Sonoma 14.3.1
CmdStan Version: 2.34.1
cmdstanr Version: 0.7.1
Compiler/Toolkit: Apple clang version 15.0.0 (clang-1500.1.0.2.5)

TBB version: stable 2021.11.0

.R/Makevars:

CXX14FLAGS = -DSTAN_THREADS -pthread
CXX14FLAGS += -O3 -march=native -mtune=native
CXX14FLAGS += -fPIC

CFLAGS   = -I/opt/homebrew/include
CPPFLAGS = -I/opt/homebrew/include
CXXFLAGS = -I/opt/homebrew/include

# homebrew alternative
FLIBS   = -L/opt/homebrew/opt/gfortran/lib
F77     = /opt/homebrew/bin/gfortran
FC      = /opt/homebrew/bin/gfortran

andrjohns · March 12, 2024, 8:47pm

This is likely because of your makefile adding the Homebrew includes to your include paths:

CPPFLAGS = -I/opt/homebrew/include
CXXFLAGS = -I/opt/homebrew/include

This is appears to cause the Homebrew TBB headers to be included instead of the CmdStan bundled headers.

Are these flags really needed? Homebrew dependencies are normally detected by pkg-config without needing to add the include directory manually.

If you specifically want the Homebrew TBB to be used instead of the bundled version, then you need to specify this (see the Math documentation for more info)

wpetry · March 12, 2024, 9:14pm

That was it, thank you @andrjohns!

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