[package - main-amd64-default][science/trilinos] Failed for trilinos-13.4.1_4 in build
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Date: Tue, 05 Sep 2023 10:51:27 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: yuri@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy18/data/main-amd64-default/p7dfcd9429217_sb451dcc84f/logs/trilinos-13.4.1_4.log
Build URL: https://pkg-status.freebsd.org/beefy18/build.html?mastername=main-amd64-default&build=p7dfcd9429217_sb451dcc84f
Log:
=>> Building science/trilinos
build started at Tue Sep 5 10:46:48 UTC 2023
port directory: /usr/ports/science/trilinos
package name: trilinos-13.4.1_4
building for: FreeBSD main-amd64-default-job-06 15.0-CURRENT FreeBSD 15.0-CURRENT 1500000 amd64
maintained by: yuri@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License BSD3CLAUSE LGPL20 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> trilinos-13.4.1_4 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.6.pkg
[main-amd64-default-job-06] Installing pkg-1.20.6...
[main-amd64-default-job-06] Extracting pkg-1.20.6: .......... done
===> trilinos-13.4.1_4 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of trilinos-13.4.1_4
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License BSD3CLAUSE LGPL20 accepted by the user
===> Fetching all distfiles required by trilinos-13.4.1_4 for building
===========================================================================
=======================<phase: checksum >============================
===> License BSD3CLAUSE LGPL20 accepted by the user
===> Fetching all distfiles required by trilinos-13.4.1_4 for building
=> SHA256 Checksum OK for trilinos-Trilinos-trilinos-release-13-4-1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License BSD3CLAUSE LGPL20 accepted by the user
===> Fetching all distfiles required by trilinos-13.4.1_4 for building
===> Extracting for trilinos-13.4.1_4
=> SHA256 Checksum OK for trilinos-Trilinos-trilinos-release-13-4-1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for trilinos-13.4.1_4
===========================================================================
=======================<phase: build-depends >============================
===> trilinos-13.4.1_4 depends on executable: bash - not found
===> Installing existing package /packages/All/bash-5.2.15.pkg
[main-amd64-default-job-06] Installing bash-5.2.15...
[main-amd64-default-job-06] `-- Installing gettext-runtime-0.22_1...
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[main-amd64-default-job-06] `-- Extracting readline-8.2.1: .......... done
[main-amd64-default-job-06] Extracting bash-5.2.15: .......... done
===> trilinos-13.4.1_4 depends on executable: bash - found
===> Returning to build of trilinos-13.4.1_4
===> trilinos-13.4.1_4 depends on package: boost-libs>0 - not found
===> Installing existing package /packages/All/boost-libs-1.82.0_1.pkg
[main-amd64-default-job-06] Installing boost-libs-1.82.0_1...
<snip>
struct LessCase : public std::binary_function<std::string,std::string,bool> {
^
/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function<std::string, std::string, bool>' has been explicitly marked deprecated here
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^
/usr/include/c++/v1/__config:781:49: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__((deprecated))
^
In file included from /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/GetEnv.cpp:36:
/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/string_case_compare.hpp:136:36: warning: 'binary_function<std::string, std::string, bool>' is deprecated [-Wdeprecated-declarations]
struct LessEqualCase : public std::binary_function<std::string,std::string,bool> {
^
/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function<std::string, std::string, bool>' has been explicitly marked deprecated here
struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function
^
/usr/include/c++/v1/__config:796:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/usr/include/c++/v1/__config:781:49: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__((deprecated))
^
In file included from /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/GetEnv.cpp:36:
/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/string_case_compare.hpp:143:34: warning: 'binary_function<std::string, std::string, bool>' is deprecated [-Wdeprecated-declarations]
struct GreaterCase : public std::binary_function<std::string,std::string,bool> {
^
/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function<std::string, std::string, bool>' has been explicitly marked deprecated here
struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function
^
/usr/include/c++/v1/__config:796:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
/usr/include/c++/v1/__config:781:49: note: expanded from macro '_LIBCPP_DEPRECATED'
# define _LIBCPP_DEPRECATED __attribute__((deprecated))
^
In file included from /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/GetEnv.cpp:36:
/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/string_case_compare.hpp:150:39: warning: 'binary_function<std::string, std::string, bool>' is deprecated [-Wdeprecated-declarations]
struct GreaterEqualCase : public std::binary_function<std::string,std::string,bool> {
^
/usr/include/c++/v1/__functional/binary_function.h:24:29: note: 'binary_function<std::string, std::string, bool>' has been explicitly marked deprecated here
struct _LIBCPP_TEMPLATE_VIS _LIBCPP_DEPRECATED_IN_CXX11 binary_function
^
/usr/include/c++/v1/__config:796:41: note: expanded from macro '_LIBCPP_DEPRECATED_IN_CXX11'
# define _LIBCPP_DEPRECATED_IN_CXX11 _LIBCPP_DEPRECATED
^
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[ 21%] Building CXX object packages/stk/stk_util/stk_util/util/CMakeFiles/stk_util_util.dir/GraphCycleDetector.cpp.o
cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/stk/stk_util/stk_util/util && /usr/bin/c++ -Dstk_util_util_EXPORTS -I/wrkdirs/usr/ports/science/trilinos/work/.build -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/stk -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/teuchos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -DNDEBU
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cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/parser/src && /usr/bin/c++ -DTEUCHOSPARSER_LIB_EXPORTS_MODE -Dteuchosparser_EXPORTS -I/wrkdirs/usr/ports/science/trilinos/work/.build -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/teuchos/parser/src -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/teuchos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos/core/src -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -DNDEBUG -std=c++14 -fPIC -MD -MT packa
ges/teuchos/parser/src/CMakeFiles/teuchosparser.dir/Teuchos_XML.cpp.o -MF CMakeFiles/teuchosparser.dir/Teuchos_XML.cpp.o.d -o CMakeFiles/teuchosparser.dir/Teuchos_XML.cpp.o -c /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/teuchos/parser/src/Teuchos_XML.cpp
--- packages/stk/stk_util/stk_util/util/CMakeFiles/stk_util_util.dir/all ---
In file included from /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/Signal.cpp:39:
/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/stk/stk_util/stk_util/util/FeatureTest.hpp:108:4: warning: Could not determine platform/operating system [-W#warnings]
# warning Could not determine platform/operating system
^
1 warning generated.
--- packages/stk/stk_util/stk_util/util/CMakeFiles/stk_util_util.dir/SignalHandler.cpp.o ---
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es/teuchosparser.dir/Teuchos_MathExpr.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/core/src:/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos/core/src: ../../core/src/libteuchoscore.so.13.4.1 ../../../kokkos/core/src/libkokkoscore.so.13.4.1 /usr/lib/libdl.so
cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/parser/src && /usr/local/bin/cmake -E cmake_symlink_library libteuchosparser.so.13.4.1 libteuchosparser.so.13 libteuchosparser.so
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cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src && /usr/bin/c++ -Dkokkoskernels_EXPORTS -I/wrkdirs/usr/ports/science/trilinos/work/.build -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/impl -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/impl/tpls -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/blas -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/blas/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/spars
e -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/sparse/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/graph -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/graph/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/dense -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/dense/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/sparse -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/sparse/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilino
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CMakeFiles/kokkoskernels.dir/dummy.cpp.o.d -o CMakeFiles/kokkoskernels.dir/dummy.cpp.o -c /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/dummy.cpp
--- packages/kokkos-kernels/src/CMakeFiles/kokkoskernels.dir/impl/tpls/KokkosBlas_Host_tpl.cpp.o ---
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cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src && /usr/bin/c++ -Dkokkoskernels_EXPORTS -I/wrkdirs/usr/ports/science/trilinos/work/.build -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/impl -I/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos-kernels/src/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/impl/tpls -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/blas -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/blas/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/spars
e -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/sparse/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/graph -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/graph/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/dense -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/dense/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/sparse -I/wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/batched/sparse/impl -I/wrkdirs/usr/ports/science/trilinos/work/Trilino
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Blas_Host_tpl.cpp.o -MF CMakeFiles/kokkoskernels.dir/impl/tpls/KokkosBlas_Host_tpl.cpp.o.d -o CMakeFiles/kokkoskernels.dir/impl/tpls/KokkosBlas_Host_tpl.cpp.o -c /wrkdirs/usr/ports/science/trilinos/work/Trilinos-trilinos-release-13-4-1/packages/kokkos-kernels/src/impl/tpls/KokkosBlas_Host_tpl.cpp
--- packages/stk/stk_util/stk_util/util/CMakeFiles/stk_util_util.dir/all ---
--- packages/stk/stk_util/stk_util/util/libstk_util_util.so.13.4.1 ---
[ 21%] Linking CXX shared library libstk_util_util.so
cd /wrkdirs/usr/ports/science/trilinos/work/.build/packages/stk/stk_util/stk_util/util && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/stk_util_util.dir/link.txt --verbose=1
/usr/bin/c++ -fPIC -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -DBOOST_STACKTRACE_GNU_SOURCE_NOT_REQUIRED -DNDEBUG -lexecinfo -Wl,-rpath=/usr/local/lib/gcc12 -L/usr/local/lib/gcc12 -B/usr/local/bin -fstack-protector-strong -shared -Wl,-soname,libstk_util_util.so.13 -o libstk_util_util.so.13.4.1 CMakeFiles/stk_util_util.dir/AlignedAllocator.cpp.o CMakeFiles/stk_util_util.dir/Bootstrap.cpp.o CMakeFiles/stk_util_util.dir/CSet.cpp.o CMakeFiles/stk_util_util.dir/FArray.cpp.o CMakeFiles/stk_util_util.dir/FieldDataAllocator.cpp.o CMakeFiles/stk_util_util.dir/GetEnv.cpp.o CMakeFiles/stk_util_util.dir/GraphCycleDetector.cpp.o CMakeFiles/stk_util_util.dir/Marshal.cpp.o CMakeFiles/stk_util_util.dir/MemoryTracking.cpp.o CMakeFiles/stk_util_util.dir/Null_Streambuf.cpp.o CMakeFiles/stk_util_util.dir/ParameterList.cpp.o CMakeFiles/stk_util_util.dir/Pool.cpp.o CMakeFiles/stk
_util_util.dir/ReportHandler.cpp.o CMakeFiles/stk_util_util.dir/Signal.cpp.o CMakeFiles/stk_util_util.dir/SignalHandler.cpp.o CMakeFiles/stk_util_util.dir/Writer.cpp.o CMakeFiles/stk_util_util.dir/WriterManip.cpp.o CMakeFiles/stk_util_util.dir/ci_string.cpp.o CMakeFiles/stk_util_util.dir/ci_traits_impl.cpp.o CMakeFiles/stk_util_util.dir/concat_variable_name.cpp.o CMakeFiles/stk_util_util.dir/human_bytes.cpp.o CMakeFiles/stk_util_util.dir/string_utils.cpp.o CMakeFiles/stk_util_util.dir/tokenize.cpp.o -Wl,-rpath,/wrkdirs/usr/ports/science/trilinos/work/.build/packages/teuchos/core/src:/wrkdirs/usr/ports/science/trilinos/work/.build/packages/kokkos/core/src: ../../../../teuchos/core/src/libteuchoscore.so.13.4.1 ../../../../kokkos/core/src/libkokkoscore.so.13.4.1 /usr/lib/libdl.so
/usr/local/bin/ld: CMakeFiles/stk_util_util.dir/ci_string.cpp.o: in function `operator>>(std::__1::basic_istream<char, std::__1::char_traits<char> >&, std::__1::basic_string<char, ignorecase_traits, std::__1::allocator<char> >&)':
ci_string.cpp:(.text+0x139): undefined reference to `std::__1::basic_istream<char, std::__1::char_traits<char> >& std::__1::operator>>[abi:v160006]<char, std::__1::char_traits<char>, std::__1::allocator<char> >(std::__1::basic_istream<char, std::__1::char_traits<char> >&, std::__1::basic_string<char, std::__1::char_traits<char>, std::__1::allocator<char> >&)'
/usr/local/bin/ld: libstk_util_util.so.13.4.1: hidden symbol `_ZNSt3__1rsB7v160006IcNS_11char_traitsIcEENS_9allocatorIcEEEERNS_13basic_istreamIT_T0_EES9_RNS_12basic_stringIS6_S7_T1_EE' isn't defined
/usr/local/bin/ld: final link failed: bad value
c++: error: linker command failed with exit code 1 (use -v to see invocation)
*** [packages/stk/stk_util/stk_util/util/libstk_util_util.so.13.4.1] Error code 1
make[3]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
1 error
make[3]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
*** [packages/stk/stk_util/stk_util/util/CMakeFiles/stk_util_util.dir/all] Error code 2
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--- packages/kokkos-kernels/src/CMakeFiles/kokkoskernels.dir/all ---
*** [packages/kokkos-kernels/src/CMakeFiles/kokkoskernels.dir/all] Error code 6
make[2]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
2 errors
make[2]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
*** [all] Error code 2
make[1]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
1 error
make[1]: stopped in /wrkdirs/usr/ports/science/trilinos/work/.build
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/ports/science/trilinos