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Posted to issues@arrow.apache.org by "Michael Vilim (JIRA)" <ji...@apache.org> on 2019/01/12 14:03:00 UTC
[jira] [Comment Edited] (ARROW-4242) [C++] Seg fault when running
unit tests on fresh Arch Linux install
[ https://issues.apache.org/jira/browse/ARROW-4242?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16741296#comment-16741296 ]
Michael Vilim edited comment on ARROW-4242 at 1/12/19 2:02 PM:
---------------------------------------------------------------
GCC 7 works without a problem.
Dockerfile:
{noformat}
FROM archimg/base
RUN \
pacman -Sy --noconfirm git cmake gcc7 make boost autoconf python; \
git clone --recursive https://github.com/apache/arrow.git; \
export CC=/usr/bin/gcc-7; \
export CXX=/usr/bin/g++-7; \
cd arrow/cpp; \
mkdir build; \
cd build; \
cmake -DARROW_BUILD_TESTS=ON ..; \
make
{noformat}
{noformat}
docker build -t mvilim/arch_arrow_test_segfault7 .
docker run mvilim/arch_arrow_test_segfault7 /bin/bash -c "cd /arrow/cpp/build; make unittest; gcc-7 --version; cmake --version"
{noformat}
was (Author: mvilim):
GCC 7 works without a problem.
Dockerfile:
{noformat}
FROM archimg/base
RUN \
pacman -Sy --noconfirm git cmake gcc7 make boost autoconf python; \
git clone --recursive https://github.com/apache/arrow.git; \
export CC=/usr/bin/gcc-7; \
export CXX=/usr/bin/g++-7; \
cd arrow/cpp; \
mkdir build; \
cd build; \
cmake -DARROW_BUILD_TESTS=ON ..; \
make
{noformat}
{noformat}
docker build -t mvilim/arch_arrow_test_segfault7 .
docker run mvilim/arch_arrow_test_segfault7 /bin/bash -c "cd /arrow/cpp/build; make unittest; gcc --version; cmake --version"
{noformat}
> [C++] Seg fault when running unit tests on fresh Arch Linux install
> -------------------------------------------------------------------
>
> Key: ARROW-4242
> URL: https://issues.apache.org/jira/browse/ARROW-4242
> Project: Apache Arrow
> Issue Type: Bug
> Components: C++
> Environment: Arch Linux x86-64
> Reporter: Michael Vilim
> Priority: Minor
> Attachments: Dockerfile
>
>
> First, let me say I appreciate all the work that has been put into this project. I have been following it with great interest and recently decided to include it in one of my projects.
> However, I have run into an issue with a segmentation fault when trying to run the C++ unit tests (which previously worked for me). This issue appears to be something specific to my system (I am running Arch Linux). I can reproduce the issue with the minimal Docker install of Arch:
> {noformat}
> FROM archimg/base
> RUN \
> pacman -Sy --noconfirm git cmake gcc make boost autoconf python; \
> git clone --recursive https://github.com/apache/arrow.git; \
> cd arrow/cpp; \
> mkdir build; \
> cd build; \
> cmake -DARROW_BUILD_TESTS=ON ..; \
> make
> {noformat}
> If you create a Dockerfile with those contents and then run
> {noformat}
> docker build -t mvilim/arch-arrow-test-segfault .
> docker run mvilim/arch-arrow-test-segfault /bin/bash -c "cd /arrow/cpp/build; make unittest; gcc --version; cmake --version"{noformat}
> you should be able to reproduce the issue:
> {noformat}
> The following tests FAILED:
> 2 - arrow-array-test (Failed)
> 3 - arrow-buffer-test (Failed)
> 8 - arrow-stl-test (Failed)
> 9 - arrow-type-test (Failed)
> 10 - arrow-table-test (Failed)
> 15 - arrow-compute-boolean-test (Failed)
> 16 - arrow-compute-cast-test (Failed)
> 17 - arrow-compute-hash-test (Failed)
> 18 - arrow-feather-test (Failed)
> 19 - arrow-ipc-read-write-test (Failed)
> 20 - arrow-ipc-json-simple-test (Failed)
> 21 - arrow-ipc-json-test (Failed)
> 24 - arrow-csv-column-builder-test (Failed)
> 28 - arrow-io-compressed-test (Failed)
> 31 - arrow-io-memory-test (Failed){noformat}
> If you run the container interactively and inspect the logs, you will see that all the failures are caused by seg faults.
> I used git bisect to narrow the problem down to commit 7cdab9b06 when the tests were switched to use shared linking by default. Static linking works fine for me (using -DARROW_TEST_LINKAGE=static).
> I also compiled with Clang and -DARROW_USE_ASAN=ON and inspected several of the stack traces. It looks like all the seg faults happen during creation of a shared pointer, but in varied places.
> On creation of Int32Type:
> {noformat}
> ./debug/arrow-array-test
> AddressSanitizer:DEADLYSIGNAL
> =================================================================
> ==29563==ERROR: AddressSanitizer: SEGV on unknown address 0x000000000000 (pc 0x558afa951b70 bp 0x7ffcf1c34880 sp 0x7ffcf1c34810 T0)
> ==29563==The signal is caused by a READ memory access.
> ==29563==Hint: address points to the zero page.
> #0 0x558afa951b6f in std::type_info::operator==(std::type_info const&) const /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/typeinfo:123:12
> #1 0x558afa9b2c16 in std::Sp_counted_ptr_inplace<arrow::Int32Type, std::allocator<arrow::Int32Type>, (_gnu_cxx::_Lock_policy)2>::_M_get_deleter(std::type_info const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr_base.h:573:16
> #2 0x7fe7b711e6f1 in std::_shared_count<(_gnu_cxx::_Lock_policy)2>::_M_get_deleter(std::type_info const&) const /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr_base.h:751:31
> #3 0x7fe7b73ec240 in std::_shared_ptr<arrow::Int32Type, (gnu_cxx::_Lock_policy)2>::_shared_ptr<std::allocator<arrow::Int32Type> >(std::_Sp_make_shared_tag, std::allocator<arrow::Int32Type> const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr_base.h:1328:28
> #4 0x7fe7b73ec1c7 in std::shared_ptr<arrow::Int32Type>::shared_ptr<std::allocator<arrow::Int32Type> >(std::_Sp_make_shared_tag, std::allocator<arrow::Int32Type> const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr.h:360:4
> #5 0x7fe7b73ec14b in std::shared_ptr<arrow::Int32Type> std::allocate_shared<arrow::Int32Type, std::allocator<arrow::Int32Type> >(std::allocator<arrow::Int32Type> const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr.h:706:14
> #6 0x7fe7b73cd323 in std::shared_ptr<arrow::Int32Type> std::make_shared<arrow::Int32Type>() /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr.h:722:14
> #7 0x7fe7b73c3f2f in arrow::int32() /home/mvilim/repos/arrow/cpp/src/arrow/type.cc:484:1
> #8 0x558afa76cc8d in __cxx_global_var_init.1 /home/mvilim/repos/arrow/cpp/src/arrow/ipc/test-common.h:65:30
> #9 0x558afa779ef9 in GLOBAL_sub_I_array_test.cc /home/mvilim/repos/arrow/cpp/src/arrow/array-test.cc{noformat}
> On creation of a Field:
> {noformat}
> #6 0x7f74f1947598 in std::shared_ptr<arrow::Field> std::make_shared<arrow::Field, std::_cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::shared_ptr<arrow::DataType> const&, bool&, std::shared_ptr<arrow::KeyValueMetadata const> const&>(std::_cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::shared_ptr<arrow::DataType> const&, bool&, std::shared_ptr<arrow::KeyValueMetadata const> const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr.h:722:14
> #7 0x7f74f193e1e3 in arrow::field(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::shared_ptr<arrow::DataType> const&, bool, std::shared_ptr<arrow::KeyValueMetadata const> const&) /home/mvilim/repos/arrow/cpp/src/arrow/type.cc:556:10
> #8 0x56079cb90206 in arrow::TestField_TestMetadataConstruction_Test::TestBody() /home/mvilim/repos/arrow/cpp/src/arrow/type-test.cc:68:13{noformat}
> On creation of an Array:
> {noformat}
> #6 0x7f8da9f9300f in std::shared_ptr<arrow::NumericArray<arrow::Int32Type> > std::make_shared<arrow::NumericArray<arrow::Int32Type>, std::shared_ptr<arrow::ArrayData> const&>(std::shared_ptr<arrow::ArrayData> const&) /usr/bin/../lib64/gcc/x86_64-pc-linux-gnu/8.2.1/../../../../include/c++/8.2.1/bits/shared_ptr.h:722:14
> #7 0x7f8da9f86fc2 in arrow::Status arrow::internal::ArrayDataWrapper::Visit<arrow::Int32Type>(arrow::Int32Type const&) /home/mvilim/repos/arrow/cpp/src/arrow/array.cc:892:13
> #8 0x7f8da9f5a076 in arrow::Status arrow::VisitTypeInline<arrow::internal::ArrayDataWrapper>(arrow::DataType const&, arrow::internal::ArrayDataWrapper*) /home/mvilim/repos/arrow/cpp/src/arrow/visitor_inline.h:46:5
> #9 0x7f8da9f2f3d3 in arrow::MakeArray(std::shared_ptr<arrow::ArrayData> const&) /home/mvilim/repos/arrow/cpp/src/arrow/array.cc:905:14{noformat}
> GCC version is 8.2.1 20181127
> cmake version is 3.13.2
> I believe the issue is related to linking in some way (because this does not happen with static linking). It is probably my lack of experience in C++ showing, but I am unsure how to proceed in finding the cause of this issue.
> Any help or advice would be appreciated.
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