I got the apache-arrow-4.0.1 source and compiled it with the Debug flag. No segmentation fault occurred. I then removed the Debug flag and still no segmentation fault. I then tried the 4.0.0 source. Still no issues. Finally, I tried the 3.0.0 source and still no issues.
Then I went back to the pre-built binaries for 3.0.0 and 4.0.0 from JFrog and the issue reappeared. I can only infer that it has to do with the way the pre-built binaries are generated... Here is how I compiled the Arrow sources on my CentOS 7. release$ cmake3 -DARROW_WITH_ZLIB=ON -DCMAKE_C_COMPILER=/opt/rh/devtoolset-3/root/usr/bin/gcc -DCMAKE_CXX_COMPILER=/opt/rh/devtoolset-3/root/usr/bin/g++ .. Thanks, Rares On Tue, Jun 8, 2021 at 5:37 PM Sutou Kouhei <k...@clear-code.com> wrote: > Hi, > > Could you try building Apache Arrow C++ with > -DCMAKE_BUILD_TYPE=Debug and get backtrace again? It will > show the source location on segmentation fault. > > Thanks, > -- > kou > > In <calq9kxa8sh07shuckhka9fuzu2n87tbydlp--aahgcwkfwo...@mail.gmail.com> > "C++ Segmentation Fault RecordBatchReader::ReadNext in CentOS only" on > Tue, 8 Jun 2021 12:01:27 -0700, > Rares Vernica <rvern...@gmail.com> wrote: > > > Hello, > > > > We recently migrated our C++ Arrow code from 0.16 to 3.0.0. The code > works > > fine on Ubuntu, but we get a segmentation fault in CentOS while reading > > Arrow Record Batch files. We can successfully read the files from Python > or > > Ubuntu so the files and the writer are fine. > > > > We use Record Batch Stream Reader/Writer to read/write data to files. > > Sometimes we use GZIP to compress the streams. The migration to 3.0.0 was > > pretty straight forward with minimal changes to the code > > > https://github.com/Paradigm4/bridge/commit/03e896e84230ddb41bfef68cde5ed9b21192a0e9 > > We have an extensive test suite and all is good on Ubuntu. On CentOS the > > write works OK but we get a segmentation fault during reading from C++. > We > > can successfully read the files using PyArrow. Moreover, the files > written > > by CentOS can be successfully read from C++ in Ubuntu. > > > > Here is the backtrace I got form gdb when the segmentation fault > occurred: > > > > Program received signal SIGSEGV, Segmentation fault. > > [Switching to Thread 0x7f548c7fb700 (LWP 2649)] > > 0x00007f545c003340 in ?? () > > (gdb) bt > > #0 0x00007f545c003340 in ?? () > > #1 0x00007f54903377ce in arrow::ipc::ArrayLoader::GetBuffer(int, > > std::shared_ptr<arrow::Buffer>*) () from /lib64/libarrow.so.300 > > #2 0x00007f549034006c in arrow::Status > > arrow::VisitTypeInline<arrow::ipc::ArrayLoader>(arrow::DataType const&, > > arrow::ipc::ArrayLoader*) () from /lib64/libarrow.so.300 > > #3 0x00007f5490340db4 in arrow::ipc::ArrayLoader::Load(arrow::Field > > const*, arrow::ArrayData*) () from /lib64/libarrow.so.300 > > #4 0x00007f5490318b5b in > > > arrow::ipc::LoadRecordBatchSubset(org::apache::arrow::flatbuf::RecordBatch > > const*, std::shared_ptr<arrow::Schema> const&, std::vector<bool, > > std::allocator<bool> > const*, arrow::ipc::DictionaryMemo const*, > > arrow::ipc::IpcReadOptions const&, arrow::ipc::MetadataVersion, > > arrow::Compression::type, arrow::io::RandomAccessFile*) () from > > /lib64/libarrow.so.300 > > #5 0x00007f549031952a in > > arrow::ipc::LoadRecordBatch(org::apache::arrow::flatbuf::RecordBatch > > const*, std::shared_ptr<arrow::Schema> const&, std::vector<bool, > > std::allocator<bool> > const&, arrow::ipc::DictionaryMemo const*, > > arrow::ipc::IpcReadOptions const&, arrow::ipc::MetadataVersion, > > arrow::Compression::type, arrow::io::RandomAccessFile*) () from > > /lib64/libarrow.so.300 > > #6 0x00007f54903197ce in > arrow::ipc::ReadRecordBatchInternal(arrow::Buffer > > const&, std::shared_ptr<arrow::Schema> const&, std::vector<bool, > > std::allocator<bool> > const&, arrow::ipc::DictionaryMemo const*, > > arrow::ipc::IpcReadOptions const&, arrow::io::RandomAccessFile*) () from > > /lib64/libarrow.so.300 > > #7 0x00007f5490345d9c in > > > arrow::ipc::RecordBatchStreamReaderImpl::ReadNext(std::shared_ptr<arrow::RecordBatch>*) > > () from /lib64/libarrow.so.300 > > #8 0x00007f549109b479 in scidb::ArrowReader::readObject > > (this=this@entry=0x7f548c7f7d80, > > name="index/0", reuse=reuse@entry=true, arrowBatch=std::shared_ptr > (empty) > > 0x0) at XIndex.cpp:104 > > #9 0x00007f549109cb0a in scidb::XIndex::load (this=this@entry > =0x7f545c003ab0, > > driver=std::shared_ptr (count 3, weak 0) 0x7f545c003e70, query=warning: > > RTTI symbol not found for class > 'std::_Sp_counted_ptr_inplace<scidb::Query, > > std::allocator<scidb::Query>, (__gnu_cxx::_Lock_policy)2>' > > warning: RTTI symbol not found for class > > 'std::_Sp_counted_ptr_inplace<scidb::Query, std::allocator<scidb::Query>, > > (__gnu_cxx::_Lock_policy)2>' > > std::shared_ptr (count 7, weak 7) 0x7f546c005330) at XIndex.cpp:286 > > > > I also tried Arrow 4.0.0. The code compiled just fine and the behavior > was > > the same, with the same backtrace. > > > > The code where the segmentation fault occurs is trying to read a GZIP > > compressed Record Batch Stream. The file is 144 bytes and has only one > > column with three int64 values. > > > >> file 0 > > 0: gzip compressed data, from Unix > > > >> stat 0 > > File: ‘0’ > > Size: 144 Blocks: 8 IO Block: 4096 regular file > > Device: 10302h/66306d Inode: 33715444 Links: 1 > > Access: (0644/-rw-r--r--) Uid: ( 1001/ scidb) Gid: ( 1001/ scidb) > > Context: unconfined_u:object_r:user_tmp_t:s0 > > Access: 2021-06-08 04:42:28.653548604 +0000 > > Modify: 2021-06-08 04:14:14.638927052 +0000 > > Change: 2021-06-08 04:40:50.221279208 +0000 > > Birth: - > > > > In [29]: s = pyarrow.input_stream('/tmp/bridge/foo/index/0', > > compression='gzip') > > In [30]: b = pyarrow.RecordBatchStreamReader(s) > > In [31]: t = b.read_all() > > In [32]: t.columns > > Out[32]: > > [<pyarrow.lib.ChunkedArray object at 0x7fefb5a552b0> > > [ > > [ > > 0, > > 5, > > 10 > > ] > > ]] > > > > I removed the GZIP compression in both the writer and the reader but the > > issue persists. So I don't think it is because of the compression. > > > > Here is the ldd on the library file which contains the reader and writers > > that use the Arrow library. It is built on a CentOS 7 with the g++ 4.9.2 > > compiler. > > > >> ldd libbridge.so > > linux-vdso.so.1 => (0x00007fffe4f10000) > > libarrow.so.300 => /lib64/libarrow.so.300 (0x00007f8a38908000) > > libaws-cpp-sdk-s3.so => /opt/aws/lib64/libaws-cpp-sdk-s3.so > > (0x00007f8a384b3000) > > libm.so.6 => /lib64/libm.so.6 (0x00007f8a381b1000) > > librt.so.1 => /lib64/librt.so.1 (0x00007f8a37fa9000) > > libdl.so.2 => /lib64/libdl.so.2 (0x00007f8a37da5000) > > libstdc++.so.6 => /lib64/libstdc++.so.6 (0x00007f8a37a9e000) > > libgcc_s.so.1 => /lib64/libgcc_s.so.1 (0x00007f8a37888000) > > libc.so.6 => /lib64/libc.so.6 (0x00007f8a374ba000) > > libcrypto.so.10 => /lib64/libcrypto.so.10 (0x00007f8a37057000) > > libssl.so.10 => /lib64/libssl.so.10 (0x00007f8a36de5000) > > libbrotlienc.so.1 => /lib64/libbrotlienc.so.1 (0x00007f8a36b58000) > > libbrotlidec.so.1 => /lib64/libbrotlidec.so.1 (0x00007f8a3694b000) > > libbrotlicommon.so.1 => /lib64/libbrotlicommon.so.1 (0x00007f8a3672b000) > > libutf8proc.so.1 => /lib64/libutf8proc.so.1 (0x00007f8a3647b000) > > libbz2.so.1 => /lib64/libbz2.so.1 (0x00007f8a3626b000) > > liblz4.so.1 => /lib64/liblz4.so.1 (0x00007f8a3605c000) > > libsnappy.so.1 => /lib64/libsnappy.so.1 (0x00007f8a35e56000) > > libz.so.1 => /lib64/libz.so.1 (0x00007f8a35c40000) > > libzstd.so.1 => /lib64/libzstd.so.1 (0x00007f8a3593a000) > > libpthread.so.0 => /lib64/libpthread.so.0 (0x00007f8a3571e000) > > /lib64/ld-linux-x86-64.so.2 (0x00007f8a39b67000) > > libaws-cpp-sdk-core.so => /opt/aws/lib64/libaws-cpp-sdk-core.so > > (0x00007f8a35413000) > > libaws-c-event-stream.so.0unstable => > > /opt/aws/lib64/libaws-c-event-stream.so.0unstable (0x00007f8a3520b000) > > libaws-c-common.so.0unstable => > /opt/aws/lib64/libaws-c-common.so.0unstable > > (0x00007f8a34fd9000) > > libaws-checksums.so => /opt/aws/lib64/libaws-checksums.so > > (0x00007f8a34dce000) > > libgssapi_krb5.so.2 => /lib64/libgssapi_krb5.so.2 (0x00007f8a34b81000) > > libkrb5.so.3 => /lib64/libkrb5.so.3 (0x00007f8a34898000) > > libcom_err.so.2 => /lib64/libcom_err.so.2 (0x00007f8a34694000) > > libk5crypto.so.3 => /lib64/libk5crypto.so.3 (0x00007f8a34461000) > > libcurl.so.4 => /opt/curl/lib/libcurl.so.4 (0x00007f8a341ea000) > > libkrb5support.so.0 => /lib64/libkrb5support.so.0 (0x00007f8a33fda000) > > libkeyutils.so.1 => /lib64/libkeyutils.so.1 (0x00007f8a33dd6000) > > libresolv.so.2 => /lib64/libresolv.so.2 (0x00007f8a33bbc000) > > libselinux.so.1 => /lib64/libselinux.so.1 (0x00007f8a33995000) > > libpcre.so.1 => /lib64/libpcre.so.1 (0x00007f8a33733000) > > > >> /opt/rh/devtoolset-3/root/usr/bin/g++ --version > > g++ (GCC) 4.9.2 20150212 (Red Hat 4.9.2-6) > > > > Do all of these ring any bells? > > > > Thank you! > > Rares >
