[pypy-issue] Issue #3039: cython / array.array bindings generate errors (pypy/pypy)

Shlomi Fish issues-reply at bitbucket.org
Sat Jul 6 08:46:53 EDT 2019

New issue 3039: cython / array.array bindings generate errors

Shlomi Fish:

Why [https://github.com/shlomif/primesieve-python/tree/array-pypy3](https://github.com/shlomif/primesieve-python/tree/array-pypy3) \(note the branch\) gives me <<ValueError: array.array size changed, may indicate binary incompatibility. Expected 72 from C header, got 24 from PyObject>> in pypy3 and works fine in cpython3? After I “#if 0” the check, I get a segfault:


shlomif[ProjEuler]:~/progs/riddles/project-euler/git/project-euler/641$ gdb -args pypy3 641-v1.py
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Reading symbols from pypy3...Reading symbols from /home/shlomif/Download/unpack/prog/python/pypy3.5-6.0.0-linux_x86_64-portable/bin/pypy3.5.debug...(no debugging symbols found)...done.                                                                                       
(no debugging symbols found)...done.
(gdb) r
Starting program: /home/shlomif/Download/unpack/prog/python/pypy3.5-6.0.0-linux_x86_64-portable/bin/pypy3 641-v1.py
Missing separate debuginfos, use: debuginfo-install glibc-2.29-14.mga8.x86_64
[Thread debugging using libthread_db enabled]
Using host libthread_db library "/lib64/libthread_db.so.1".

Program received signal SIGSEGV, Segmentation fault.
resize (n=26355869, self=0x8e3350) at primesieve/array/_array.cpp:1190
1190        PyMem_Resize(items, char, (size_t)(n * self->ob_descr->itemsize));
Missing separate debuginfos, use: debuginfo-install lib64bz2_1-1.0.6-13.mga7.x86_64 lib64xcrypt1-4.4.6-1.mga7.x86_64 lib64zlib1-1.2.11-7.mga7.x86_64 libgomp1-8.3.1-0.20190628.2.mga8.x86_64 libstdc++6-8.3.1-0.20190628.2.mga8.x86_64                                         
(gdb) p self
$1 = (arrayobject *) 0x8e3350
(gdb) p self[0]
$2 = {ob_refcnt = 2305843009213693953, ob_pypy_link = 140737275159976,
  ob_type = 0x8bb840, ob_size = 262193, data = {ob_item = 0x0,
    as_floats = 0x0, as_doubles = 0x0, as_ints = 0x0, as_uints = 0x0,
    as_uchars = 0x0, as_schars = 0x0, as_chars = 0x0, as_ulongs = 0x0,
    as_longs = 0x0, as_ulonglongs = 0x0, as_longlongs = 0x0, as_shorts = 0x0,
    as_ushorts = 0x0, as_pyunicodes = 0x0, as_voidptr = 0x0}, allocated = 0,
  ob_descr = 0x4100015a90, weakreflist = 0x4000, ob_exports = -309255392}
(gdb) p self[0].ob
ob_descr      ob_pypy_link  ob_size
ob_exports    ob_refcnt     ob_type
(gdb) p self[0].ob_descr
$3 = (arraydescr *) 0x4100015a90
(gdb) p self[0].ob_descr [0]
Cannot access memory at address 0x4100015a90
(gdb) p items
$4 = (void *) 0x0
(gdb) p n
$5 = 26355869
(gdb) p self[0].ob_descr
$6 = (arraydescr *) 0x4100015a90
(gdb) q
A debugging session is active.




Here is the offending code:


# import array
import heapq
import sys
import time
from bisect import bisect_right
# from subprocess import PIPE, Popen

# import primesieve
import primesieve.array

from six import print_
from six.moves import range

# Tuple is (n,k) where n is the sum and k is the count.
# pipe = Popen(["primesieve", "-p1", "2", "500000029"], stdout=PIPE).stdout
# pipe = Popen("primesieve -p1 2 1000", shell=True, stdout=PIPE).stdout

t1 = time.time()
primes = primesieve.array.primes(500000029)
t2 = time.time()

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