DB Tsai created ARROW-1873:
------------------------------
Summary: Segmentation fault when loading total 2GB of parquet files
Key: ARROW-1873
URL: https://issues.apache.org/jira/browse/ARROW-1873
Project: Apache Arrow
Issue Type: Bug
Reporter: DB Tsai
We are trying to load 100 parquet files, and each of them is around 20MB.
Before we port [ARROW-1830] into our pyarrow distribution, we use {{glob}} to
list all the files, and then load them as pandas dataframe through pyarrow.
The schema of the parquet files is like
{code:java}
root
|-- dateint: integer (nullable = true)
|-- profileid: long (nullable = true)
|-- time: long (nullable = true)
|-- label: double (nullable = true)
|-- weight: double (nullable = true)
|-- features: array (nullable = true)
| |-- element: double (containsNull = true)
{code}
If we only load couple of them, it works without any issue. However, then
loading 100 of them, we got segmentation fault as the following. FYI, if we
flatten {{features: array[double]}} into top level, the file sizes are the
same, and work fine too.
Is there anything we can try to eliminate this issue? Thanks.
{code}
>>> import glob
>>> files = glob.glob("/home/dbt/data/*")
>>> data = pq.ParquetDataset(files).read().to_pandas()
[New Thread 0x7fffe8f84700 (LWP 23769)]
[New Thread 0x7fffe3b93700 (LWP 23770)]
[New Thread 0x7fffe3392700 (LWP 23771)]
[New Thread 0x7fffe2b91700 (LWP 23772)]
[Thread 0x7fffe2b91700 (LWP 23772) exited]
[Thread 0x7fffe3b93700 (LWP 23770) exited]
Thread 4 "python" received signal SIGSEGV, Segmentation fault.
[Switching to Thread 0x7fffe3392700 (LWP 23771)]
0x00007ffff270fc94 in arrow::Status
arrow::VisitTypeInline<arrow::py::ArrowDeserializer>(arrow::DataType const&,
arrow::py::ArrowDeserializer*) ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
(gdb) backtrace
#0 0x00007ffff270fc94 in arrow::Status
arrow::VisitTypeInline<arrow::py::ArrowDeserializer>(arrow::DataType const&,
arrow::py::ArrowDeserializer*) ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#1 0x00007ffff2700b5a in
arrow::py::ConvertColumnToPandas(arrow::py::PandasOptions,
std::shared_ptr<arrow::Column> const&, _object*, _object**) ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#2 0x00007ffff2714985 in arrow::Status
arrow::py::ConvertListsLike<arrow::DoubleType>(arrow::py::PandasOptions,
std::shared_ptr<arrow::Column> const&, _object**) () from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#3 0x00007ffff2716b92 in
arrow::py::ObjectBlock::Write(std::shared_ptr<arrow::Column> const&, long,
long) ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#4 0x00007ffff270a489 in
arrow::py::DataFrameBlockCreator::WriteTableToBlocks(int)::{lambda(int)#1}::operator()(int)
const ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#5 0x00007ffff270a67c in std::thread::_Impl<std::_Bind_simple<arrow::Status
arrow::ParallelFor<arrow::py::DataFrameBlockCreator::WriteTableToBlocks(int)::{lambda(int)#1}&>(int,
int,
arrow::py::DataFrameBlockCreator::WriteTableToBlocks(int)::{lambda(int)#1}&)::{lambda()#1}
()> >::_M_run() ()
from
/home/dbt/miniconda3/lib/python3.6/site-packages/pyarrow/../../../libarrow_python.so.0
#6 0x00007ffff1e30c5c in std::execute_native_thread_routine_compat
(__p=<optimized out>)
at
/opt/conda/conda-bld/compilers_linux-64_1505664199673/work/.build/src/gcc-7.2.0/libstdc++-v3/src/c++11/thread.cc:110
#7 0x00007ffff7bc16ba in start_thread (arg=0x7fffe3392700) at
pthread_create.c:333
#8 0x00007ffff78f73dd in clone () at
../sysdeps/unix/sysv/linux/x86_64/clone.S:109
{code}
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