However, in an effort to make memory errors during testing a little
more reproducible I made this little edit to local/bin/sagedoctest.py
to ensure the garbage collector is run before every doctested line:
--------------------------------------------------------------------
diff --git a/sagedoctest.py b/sagedoctest.py
--- a/sagedoctest.py
+++ b/sagedoctest.py
@@ -1,7 +1,9 @@
from __future__ import with_statement
import ncadoctest
+import gc
import sage.misc.randstate as randstate
+import sys
OrigDocTestRunner = ncadoctest.DocTestRunner
class SageDocTestRunner(OrigDocTestRunner):
@@ -35,6 +37,8 @@ class SageDocTestRunner(OrigDocTestRunne
except Exception, e:
self._timeit_stats[key] = e
# otherwise, just run the example
+ sys.stderr.write('testing example %s\n'%example)
+ gc.collect()
OrigDocTestRunner.run_one_example(self, test, example,
filename, compileflags)
def save_timeit_stats_to_file_named(self, output_filename):
--------------------------------------------------------------------
(i.e., just add a gc.collect() to run_one_example)
and it causes a reliable failure in crypto/mq/mpolynomialsystem.py:
Trying:
C[Integer(0)].groebner_basis()###line 84:_sage_ sage:
C[0].groebner_basis()
Expecting:
Polynomial Sequence with 26 Polynomials in 16 Variables
testing example <ncadoctest.Example instance at 0x69706c8>
ok
Trying:
A,v = mq.MPolynomialSystem(r2).coefficient_matrix()###line
87:_sage_ sage: A,v = mq.MPolynomialSystem(r2).coefficient_matrix()
Expecting nothing
testing example <ncadoctest.Example instance at 0x6970710>
*** glibc detected *** python: double free or corruption (out):
0x00000000075c58c0 ***
======= Backtrace: =========
/lib64/libc.so.6[0x31cfe7da76]
/lib64/libc.so.6[0x31cfe7ed5e]
/usr/local/sage/5.5b2/local/lib/python/site-packages/sage/rings/
polynomial/pbori.so(+0x880aa)[0x7fa5eba7e0aa]
/usr/local/sage/5.5b2/local/lib/python/site-packages/sage/rings/
polynomial/pbori.so(+0x1d993)[0x7fa5eba13993]
...
Running it under sage -t --gdb gives:
(gdb) bt
#0 0x00000031cfe36285 in raise () from /lib64/libc.so.6
#1 0x00000031cfe37b9b in abort () from /lib64/libc.so.6
#2 0x00000031cfe7774e in __libc_message () from /lib64/libc.so.6
#3 0x00000031cfe7da76 in malloc_printerr () from /lib64/libc.so.6
#4 0x00000031cfe7ed5e in _int_free () from /lib64/libc.so.6
#5 0x00007fffce5cb0aa in
Delete<polybori::groebner::ReductionStrategy> (mem=0x547db30)
at /usr/local/sage/5.5b2/local/include/csage/ccobject.h:77
#6
__pyx_pf_4sage_5rings_10polynomial_5pbori_17ReductionStrategy_2__dealloc__
(__pyx_v_self=<optimized out>)
at sage/rings/polynomial/pbori.cpp:37868
#7
__pyx_pw_4sage_5rings_10polynomial_5pbori_17ReductionStrategy_3__dealloc__
(__pyx_v_self=0x54bf390)
at sage/rings/polynomial/pbori.cpp:37834
#8
__pyx_tp_dealloc_4sage_5rings_10polynomial_5pbori_ReductionStrategy
(o=0x54bf390) at sage/rings/polynomial/pbori.cpp:52283
#9 0x00007fffce560993 in
__pyx_tp_clear_4sage_5rings_10polynomial_5pbori_GroebnerStrategy
(o=0x54baeb0)
at sage/rings/polynomial/pbori.cpp:52545
#10 0x00007ffff7d4b637 in delete_garbage (old=0x7ffff7fe19e0,
collectable=0x7fffffffbb60) at Modules/gcmodule.c:769
#11 collect (generation=2) at Modules/gcmodule.c:930
#12 0x00007ffff7d4bdc9 in gc_collect (self=<optimized out>,
args=<optimized out>, kws=<optimized out>) at Modules/gcmodule.c:1067
which should give a pretty good pointer for pbori people to figure out
which memory deallocation is actually botched.
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