Error(s) in re-building vignettes:
--- re-building ‘stanmath.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Building shared library for Rcpp code chunk...
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:1:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Core:535:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:2:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/LU:47:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Cholesky:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Jacobi:29:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Cholesky:43:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/QR:17:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Householder:27:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SVD:48:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Geometry:58:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/fwd/mat/fun/dot_self.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:7:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Eigenvalues:58:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseCore:66:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:27:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/OrderingMethods:71:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseCholesky:43:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:32:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseQR:35:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:33:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/IterativeLinearSolvers:46:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:292:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/dirichlet_rng.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/gamma_distribution.hpp:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/exponential_distribution.hpp:27:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/detail/int_float_pair.hpp:26:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/detail/integer_log2.hpp:19:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/pending/integer_log2.hpp:7:1: warning: This header is deprecated. Use <boost/integer/integer_log2.hpp> instead. [-W#pragma-messages]
BOOST_HEADER_DEPRECATED("<boost/integer/integer_log2.hpp>");
^
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/config/header_deprecated.hpp:23:37: note: expanded from macro 'BOOST_HEADER_DEPRECATED'
# define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
                                    ^
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/config/pragma_message.hpp:24:34: note: expanded from macro 'BOOST_PRAGMA_MESSAGE'
# define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
                                 ^
<scratch space>:52:2: note: expanded from here
 message("This header is deprecated. Use " "<boost/integer/integer_log2.hpp>" " instead.")
 ^
In file included from file768f3f652c5c.cpp:8:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:32:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/CholmodSupport:45:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:8:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:35:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:8:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:39:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/Polynomials:135:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:8:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:40:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/SparseExtra:51:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f3f652c5c.cpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/mix/mat/functor/hessian.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:45:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: unused function 'set_zero_all_adjoints' [-Wunused-function]
static void set_zero_all_adjoints() {
            ^
In file included from file768f3f652c5c.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:336:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_log.hpp:5:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp:64:59: warning: unused typedef 'T_alpha_val' [-Wunused-local-typedef]
      typename partials_return_type<T_alpha>::type>::type T_alpha_val;
                                                          ^
20 warnings generated.
Building shared library for Rcpp code chunk...
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:1:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Core:535:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:2:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/LU:47:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Cholesky:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Jacobi:29:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:3:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Cholesky:43:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/QR:17:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Householder:27:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SVD:48:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Geometry:58:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/build_vari_array.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/Eigen.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Dense:7:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Eigenvalues:58:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:26:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseCore:66:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:27:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/OrderingMethods:71:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:29:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseCholesky:43:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:32:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/SparseQR:35:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:109:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/fun/csr_extract_u.hpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/Sparse:33:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/IterativeLinearSolvers:46:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:292:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/dirichlet_rng.hpp:5:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/gamma_distribution.hpp:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/exponential_distribution.hpp:27:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/detail/int_float_pair.hpp:26:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/random/detail/integer_log2.hpp:19:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/pending/integer_log2.hpp:7:1: warning: This header is deprecated. Use <boost/integer/integer_log2.hpp> instead. [-W#pragma-messages]
BOOST_HEADER_DEPRECATED("<boost/integer/integer_log2.hpp>");
^
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/config/header_deprecated.hpp:23:37: note: expanded from macro 'BOOST_HEADER_DEPRECATED'
# define BOOST_HEADER_DEPRECATED(a) BOOST_PRAGMA_MESSAGE("This header is deprecated. Use " a " instead.")
                                    ^
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/BH/include/boost/config/pragma_message.hpp:24:34: note: expanded from macro 'BOOST_PRAGMA_MESSAGE'
# define BOOST_PRAGMA_MESSAGE(x) _Pragma(BOOST_STRINGIZE(message(x)))
                                 ^
<scratch space>:29:2: note: expanded from here
 message("This header is deprecated. Use " "<boost/integer/integer_log2.hpp>" " instead.")
 ^
In file included from file768f76cd1a48.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:32:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/CholmodSupport:45:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:35:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/KroneckerProduct:34:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:39:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/Polynomials:135:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:6:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigen.h:25:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/RcppEigenForward.h:40:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/SparseExtra:51:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/Rlib/3.6/RcppEigen/include/unsupported/Eigen/../../Eigen/src/Core/util/ReenableStupidWarnings.h:10:30: warning: pragma diagnostic pop could not pop, no matching push [-Wunknown-pragmas]
    #pragma clang diagnostic pop
                             ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core.hpp:45:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/core/set_zero_all_adjoints.hpp:14:13: warning: unused function 'set_zero_all_adjoints' [-Wunused-function]
static void set_zero_all_adjoints() {
            ^
In file included from file768f76cd1a48.cpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math.hpp:4:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/rev/mat.hpp:12:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat.hpp:336:
In file included from /Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_log.hpp:5:
/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/StanHeaders/include/stan/math/prim/mat/prob/poisson_log_glm_lpmf.hpp:64:59: warning: unused typedef 'T_alpha_val' [-Wunused-local-typedef]
      typename partials_return_type<T_alpha>::type>::type T_alpha_val;
                                                          ^
20 warnings generated.

 *** caught segfault ***
address 0x7f9ee6f00000, cause 'memory not mapped'

Traceback:
 1: .Call(<pointer: 0x106cc6db0>, A, y0)
 2: stiff(A, y0)
 3: all.equal(stiff(A, y0), c(0, 0), tol = 1e-08)
 4: eval(expr, envir, enclos)
 5: eval(expr, envir, enclos)
 6: withVisible(eval(expr, envir, enclos))
 7: withCallingHandlers(withVisible(eval(expr, envir, enclos)), warning = wHandler,     error = eHandler, message = mHandler)
 8: handle(ev <- withCallingHandlers(withVisible(eval(expr, envir,     enclos)), warning = wHandler, error = eHandler, message = mHandler))
 9: timing_fn(handle(ev <- withCallingHandlers(withVisible(eval(expr,     envir, enclos)), warning = wHandler, error = eHandler, message = mHandler)))
10: evaluate_call(expr, parsed$src[[i]], envir = envir, enclos = enclos,     debug = debug, last = i == length(out), use_try = stop_on_error !=         2L, keep_warning = keep_warning, keep_message = keep_message,     output_handler = output_handler, include_timing = include_timing)
11: evaluate::evaluate(...)
12: evaluate(code, envir = env, new_device = FALSE, keep_warning = !isFALSE(options$warning),     keep_message = !isFALSE(options$message), stop_on_error = if (options$error &&         options$include) 0L else 2L, output_handler = knit_handlers(options$render,         options))
13: in_dir(input_dir(), evaluate(code, envir = env, new_device = FALSE,     keep_warning = !isFALSE(options$warning), keep_message = !isFALSE(options$message),     stop_on_error = if (options$error && options$include) 0L else 2L,     output_handler = knit_handlers(options$render, options)))
14: block_exec(params)
15: call_block(x)
16: process_group.block(group)
17: process_group(group)
18: withCallingHandlers(if (tangle) process_tangle(group) else process_group(group),     error = function(e) {        setwd(wd)        cat(res, sep = "\n", file = output %n% "")        message("Quitting from lines ", paste(current_lines(i),             collapse = "-"), " (", knit_concord$get("infile"),             ") ")    })
19: process_file(text, output)
20: knit(input, text = text, envir = envir, quiet = quiet)
21: knit2html(..., force_v1 = TRUE)
22: (if (grepl("\\.[Rr]md$", file)) knit2html_v1 else if (grepl("\\.[Rr]rst$",     file)) knit2pandoc else knit)(file, encoding = encoding,     quiet = quiet, envir = globalenv(), ...)
23: vweave(...)
24: engine$weave(file, quiet = quiet, encoding = enc)
25: doTryCatch(return(expr), name, parentenv, handler)
26: tryCatchOne(expr, names, parentenv, handlers[[1L]])
27: tryCatchList(expr, classes, parentenv, handlers)
28: tryCatch({    engine$weave(file, quiet = quiet, encoding = enc)    setwd(startdir)    output <- find_vignette_product(name, by = "weave", engine = engine)    if (!have.makefile && vignette_is_tex(output)) {        texi2pdf(file = output, clean = FALSE, quiet = quiet)        output <- find_vignette_product(name, by = "texi2pdf",             engine = engine)    }    outputs <- c(outputs, output)}, error = function(e) {    thisOK <<- FALSE    fails <<- c(fails, file)    message(gettextf("Error: processing vignette '%s' failed with diagnostics:\n%s",         file, conditionMessage(e)))})
29: tools:::buildVignettes(dir = "/Volumes/SSD-Data/Builds/R-dev-web/QA/Simon/packages/el-capitan-x86_64/results/3.6/StanHeaders.Rcheck/vign_test/StanHeaders",     ser_elibs = "/tmp/RtmpKnOcLm/file741d32e0e0f7.rds")
An irrecoverable exception occurred. R is aborting now ...