Last updated on 2026-04-18 17:51:42 CEST.
| Package | ERROR | OK |
|---|---|---|
| flocker | 1 | 13 |
Current CRAN status: ERROR: 1, OK: 13
Version: 1.0-0
Check: tests
Result: ERROR
Running 'spelling.R' [0s]
Running 'testthat.R' [80s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(flocker)
>
> test_check("flocker")
Formatting data for a single-season occupancy model. For details, see make_flocker_data_static. All warnings and error messages should be interpreted in the context of make_flocker_data_static
Compiling Stan program...
specified C++17
make cmd is
make -f "D:/RCompile/recent/R/etc/x64/Makeconf" -f "D:/RCompile/recent/R/share/make/winshlib.mk" CXX='$(CXX17) $(CXX17STD)' CXXFLAGS='$(CXX17FLAGS)' CXXPICFLAGS='$(CXX17PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX17LDFLAGS)' SHLIB_LD='$(SHLIB_CXX17LD)' SHLIB="file1a03871776240.dll" WIN=64 TCLBIN= OBJECTS="file1a03871776240.o"
make would use
make[1]: Entering directory '/d/temp/2026_04_17_01_50_00_1722/RtmpUvZBqG'
g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I"D:/RCompile/CRANpkg/lib/4.6/Rcpp/include/" -I"D:/temp/2026_04_17_01_50_00_1722/RtmpuilCft/RLIBS_1698012a05d67/RcppEigen/include/" -I"D:/temp/2026_04_17_01_50_00_1722/RtmpuilCft/RLIBS_1698012a05d67/RcppEigen/include/unsupported" -I"D:/temp/2026_04_17_01_50_00_1722/RtmpuilCft/RLIBS_1698012a05d67/BH/include" -I"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/src/" -I"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/" -I"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/include/" -DRCPP_PARALLEL_USE_TBB=1 -I"D:/RCompile/CRANpkg/lib/4.6/rstan/include" -DEIGEN_NO_DEBUG -DBOOST_DISABLE_ASSERTS -DBOOST_PENDING_INTEGER_LOG2_HPP -DSTAN_THREADS -DUSE_STANC3 -DSTRICT_R_HEADERS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -include "D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/stan/math/prim/fun/Eigen.hpp" -std=c++1y -I"d:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c file1a03871776240.cpp -o file1a03871776240.o
if test "zfile1a03871776240.o" != "z"; then \
if test -e "file1a03871776240-win.def"; then \
echo g++ -shared -s -static-libgcc -o file1a03871776240.dll file1a03871776240-win.def file1a03871776240.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64" -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file1a03871776240.dll file1a03871776240-win.def file1a03871776240.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64" -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
else \
echo EXPORTS > tmp.def; \
nm file1a03871776240.o | sed -n 's/^.* [BCDRT] / /p' | sed -e '/[.]refptr[.]/d' -e '/[.]weak[.]/d' | sed 's/[^ ][^ ]*/"&"/g' >> tmp.def; \
echo g++ -shared -s -static-libgcc -o file1a03871776240.dll tmp.def file1a03871776240.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64" -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
g++ -shared -s -static-libgcc -o file1a03871776240.dll tmp.def file1a03871776240.o "D:/RCompile/CRANpkg/lib/4.6/rstan/lib/x64/libStanServices.a" -L"D:/RCompile/CRANpkg/lib/4.6/StanHeaders/libs/x64" -lStanHeaders -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64" -ltbb -L"D:/RCompile/CRANpkg/lib/4.6/RcppParallel/libs/x64" -lRcppParallel -LD:/RCompile/CRANpkg/lib/4.6/RcppParallel/lib/x64 -ltbb -ltbbmalloc -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64" -L"d:/rtools45/x86_64-w64-mingw32.static.posix/lib" -L"D:/RCompile/recent/R/bin/x64" -lR ; \
rm -f tmp.def; \
fi \
fi
make[1]: Leaving directory '/d/temp/2026_04_17_01_50_00_1722/RtmpUvZBqG'
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `compileCode()`:
! l = model1a03868326ba2__namespace::model1a03868326ba2_; BaseRNG = boost::random::additive_combine_engine<boost::random::linear_congruential_engine<unsigned int, 40014, 0, 2147483563>, boost::random::linear_congruential_engine<unsigned int, 40692, 0, 2147483399> >]'
22 | return 0.5 * z.p.transpose() * z.inv_e_metric_ * z.p;
D:/RCompile/CRANpkg/lib/4.6/StanHeaders/include/src/stan/mcmc/hmc/hamiltonians/dense_e_metric.hpp:21:0: required from here
21 | double T(dense_e_point& z) {
D:/RCompile/CRANpkg/lib/4.6/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:654:74: warning: ignoring attributes on template argument 'Eigen::internal::packet_traits<double>::type' {aka '__m128d'} [-Wignored-attributes]
654 | return internal::first_aligned<int(unpacket_traits<DefaultPacketType>::alignment),Derived>(m);
| ^~~~~~~~~
make[1]: *** [D:/RCompile/recent/R/etc/x64/Makeconf:304: file1a03871776240.o] Error 1
Backtrace:
▆
1. ├─testthat::test_check("flocker")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ ├─base::suppressWarnings(...) at ./setup.R:6:1
15. │ │ └─base::withCallingHandlers(...)
16. │ └─flocker::flock(...) at ./setup.R:12:3
17. │ └─flocker:::flock_(...)
18. │ └─flocker:::flocker_fit_code_util(...)
19. │ └─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ ├─pkgbuild::with_build_tools(...)
36. │ │ └─pkgbuild:::withr_with_path(rtools_path(), code)
37. │ │ └─base::force(code)
38. │ └─inline::cxxfunction(...)
39. │ └─inline:::compileCode(f, code, language = language, verbose = verbose)
40. │ └─base::stop(...)
41. └─base::.handleSimpleError(...)
42. └─testthat (local) h(simpleError(msg, call))
43. └─cli::cli_abort(...)
44. └─rlang::abort(...)
Error in `source_dir()`:
! Failed to evaluate './setup.R'.
Caused by error in `sink()`:
! invalid connection
Backtrace:
▆
1. ├─testthat::test_check("flocker")
2. │ └─testthat::test_dir(...)
3. │ └─testthat:::test_files(...)
4. │ └─testthat:::test_files_serial(...)
5. │ └─testthat:::test_files_setup_state(...)
6. │ └─testthat::source_test_setup(".", env)
7. │ └─testthat::source_dir(path, "^setup.*\\.[rR]$", env = env, wrap = FALSE)
8. │ └─base::lapply(...)
9. │ └─testthat (local) FUN(X[[i]], ...)
10. │ └─testthat::source_file(...)
11. │ ├─base::withCallingHandlers(...)
12. │ └─base::eval(exprs, env)
13. │ └─base::eval(exprs, env)
14. │ ├─base::suppressWarnings(...) at ./setup.R:6:1
15. │ │ └─base::withCallingHandlers(...)
16. │ └─flocker::flock(...) at ./setup.R:12:3
17. │ └─flocker:::flock_(...)
18. │ └─flocker:::flocker_fit_code_util(...)
19. │ └─brms::brm(...)
20. │ └─brms::do_call(compile_model, compile_args)
21. │ └─brms:::eval2(call, envir = args, enclos = envir)
22. │ └─base::eval(expr, envir, ...)
23. │ └─base::eval(expr, envir, ...)
24. │ └─brms (local) .fun(...)
25. │ └─brms (local) .compile_model(model, ...)
26. │ ├─brms:::eval_silent(...)
27. │ │ └─base::eval(expr, envir)
28. │ │ └─base::eval(expr, envir)
29. │ └─brms::do_call(rstan::stan_model, args)
30. │ └─brms:::eval2(call, envir = args, enclos = envir)
31. │ └─base::eval(expr, envir, ...)
32. │ └─base::eval(expr, envir, ...)
33. │ └─rstan (local) .fun(model_code = .x1)
34. │ └─rstan:::cxxfunctionplus(...)
35. │ └─base::sink(type = "output")
36. └─base::.handleSimpleError(`<fn>`, "invalid connection", base::quote(sink(type = "output")))
37. └─testthat (local) h(simpleError(msg, call))
38. └─cli::cli_abort(...)
39. └─rlang::abort(...)
Execution halted
Flavor: r-devel-windows-x86_64