#967 closed defect (wontfix)

vcf_file2.test seg faults

Reported by: Peter Owned by: Jari Häkkinen
Priority: major Milestone:
Component: test Version:
Keywords: Cc:

Description

On CentOS with GCC 7.5.5 and HTSLIB 1.10.2

Change History (2)

comment:1 Changed 20 months ago by Peter

It this line in VcfFile.cc that causes the crash

fis_.push(boost::iostreams::gzip_decompressor());

It crashes with boost 1.61 but not with boost 1.69, so I reckon this a wontwix.

comment:2 Changed 20 months ago by Peter

Milestone: yat 0.18
Resolution: wontfix
Status: newclosed

Here is the backtrace:

#0  0x00007ffff5efba80 in boost::iostreams::detail::gzip_header::reset() ()
   from /software/boost/boost-1.61.0/lib/libboost_iostreams.so.1.61.0
#1  0x00007ffff7b1cbdf in gzip_header (this=0x7fffffffca80)
    at /software/boost/boost-1.61.0/include/boost/iostreams/filter/gzip.hpp:327
#2  boost::iostreams::basic_gzip_decompressor<std::allocator<char> >::basic_gzip_decompressor (
    this=0x7fffffffca70, window_bits=<optimized out>, buffer_size=<optimized out>)
    at /software/boost/boost-1.61.0/include/boost/iostreams/filter/gzip.hpp:736
#3  0x00007ffff7b191de in theplu::yat::omic::VcfFile::open (this=this@entry=0x7fffffffcef0, fn=...)
    at /mnt/backedup/home/peterJo/projects/osd/yat-stable/yat/omic/VcfFile.cc:117
#4  0x00007ffff7b19e98 in theplu::yat::omic::VcfFile::VcfFile (this=0x7fffffffcef0, fn=...)
    at /mnt/backedup/home/peterJo/projects/osd/yat-stable/yat/omic/VcfFile.cc:47
#5  0x0000000000402d3b in main (argc=<optimized out>, argv=<optimized out>)
    at /mnt/backedup/home/peterJo/projects/osd/yat-stable/test/vcf_file2.cc:38
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