One possible issue is that an object that holds a reference to itself
and implement a __del__ method is not collected. Pick the minimal
example
sage: class A(object):
def __del__(self):
print "delete %d"%id(self)
sage: a = A()
sage: a.a = a
sage: del a
sage: gc.collect()
2
sage: gc.garbage
[<__main__.A object at 0x7fdd5ee25290>]
Once you delete the self-reference it gets collected
sage: gc.garbage[0].a = None
sage: del gc.garbage[:]
delete 140588756390544
More generally if you have a cycle of references with one element in
the cycle with a __del__ this is not collected. I am not sure where is
this cycle with expect/Gp though.
Vincent
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