#13883 closed defect (fixed)
Fix an assertion in polybori
Reported by:  SimonKing  Owned by:  malb 

Priority:  major  Milestone:  sage5.6 
Component:  commutative algebra  Keywords:  polybori FGLMStrategy debug 
Cc:  AlexanderDreyer, PolyBoRi  Merged in:  sage5.6.beta3 
Authors:  Alexander Dreyer  Reviewers:  JeanPierre Flori 
Report Upstream:  Reported upstream. No feedback yet.  Work issues:  
Branch:  Commit:  
Dependencies:  Stopgaps: 
Description (last modified by )
The following crash occurs in Sage's debug version of #13864:
sage: from polybori import * sage: B.<x,y,z> = BooleanPolynomialRing() sage: x > y > z True sage: old_ring = B sage: B._change_ordering(dp_asc) sage: x > y > z False sage: z > y > x True sage: new_ring = B.clone(ordering=lp) sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: FGLMStrategy(old_ring, new_ring, ideal) python: groebner/include/polybori/groebner/PolyEntryVector.h:74: virtual void polybori::groebner::PolyEntryVector::append(const polybori::groebner::PolyEntry&): Assertion `m_indices.checked(back().lead) == (size_type)1' failed.
The gdb backtrace is as follows:
#0 0x00007ffff6d95d95 in raise () from /lib64/libc.so.6 #1 0x00007ffff6d972ab in abort () from /lib64/libc.so.6 #2 0x00007ffff6d8e8fe in __assert_fail_base () from /lib64/libc.so.6 #3 0x00007ffff6d8e9a2 in __assert_fail () from /lib64/libc.so.6 #4 0x00007fffd0bfa073 in polybori::groebner::PolyEntryVector::append(polybori::groebner::PolyEntry const&) [clone .part.506] () from /home/simon/SAGE/debug/sage5.6.beta1/local/lib/libpolybori_groebner0.8.2.so.0 #5 0x00007fffd0c165b9 in polybori::groebner::FGLMStrategy::FGLMStrategy(polybori::BoolePolyRing const&, polybori::BoolePolyRing const&, std::vector<polybori::BoolePolynomial, std::allocator<polybori::BoolePolynomial> > const&) () from /home/simon/SAGE/debug/sage5.6.beta1/local/lib/libpolybori_groebner0.8.2.so.0 #6 0x00007fffd15378b7 in WrappedPtr<polybori::groebner::FGLMStrategy>::WrappedPtr<polybori::BoolePolyRing, polybori::BoolePolyRing, std::vector<polybori::BoolePolynomial> > (this=0x7fffffffa740, arg1=..., arg2=..., arg3=...) at /home/simon/SAGE/debug/sage5.6.beta1/local/include/csage/pb_wrap.h:197 #7 0x00007fffd14dbc5e in __pyx_pf_4sage_5rings_10polynomial_5pbori_12FGLMStrategy___init__ (__pyx_v_self=0x7fffc270dee8, __pyx_v_from_ring=0x2f412b0, __pyx_v_to_ring=0x2f69200, __pyx_v_vec=0x7fffc26f7760) at sage/rings/polynomial/pbori.cpp:39777 #8 0x00007fffd14dae26 in __pyx_pw_4sage_5rings_10polynomial_5pbori_12FGLMStrategy_1__init__ (__pyx_v_self=0x7fffc270dee8, __pyx_args=0x7ffff237bb60, __pyx_kwds=0x0) at sage/rings/polynomial/pbori.cpp:39568 #9 0x00007ffff7a4c0dd in type_call (type=0x7fffd17b8c20 <__pyx_type_4sage_5rings_10polynomial_5pbori_FGLMStrategy>, args=0x7ffff237bb60, kwds=0x0) at Objects/typeobject.c:737 #10 0x00007ffff79be33e in PyObject_Call (func=0x7fffd17b8c20 <__pyx_type_4sage_5rings_10polynomial_5pbori_FGLMStrategy>, arg=0x7ffff237bb60, kw=0x0) at Objects/abstract.c:2529 #11 0x00007ffff7ac7a58 in do_call (func=0x7fffd17b8c20 <__pyx_type_4sage_5rings_10polynomial_5pbori_FGLMStrategy>, pp_stack=0x7fffffffaaa0, na=3, nk=0) at Python/ceval.c:4239 #12 0x00007ffff7ac6d92 in call_function (pp_stack=0x7fffffffaaa0, oparg=3) at Python/ceval.c:4044 #13 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x2f6d0f0, throwflag=0) at Python/ceval.c:2666 #14 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7fffc2747930, globals=0x9b0080, locals=0x9b0080, args=0x0, argcount=0, kws=0x0, kwcount=0, defs=0x0, defcount=0, closure=0x0) at Python/ceval.c:3253 #15 0x00007ffff7ab9a88 in PyEval_EvalCode (co=0x7fffc2747930, globals=0x9b0080, locals=0x9b0080) at Python/ceval.c:667 #16 0x00007ffff7ac9693 in exec_statement (f=0x297f250, prog=0x7fffc2747930, globals=0x9b0080, locals=0x9b0080) at Python/ceval.c:4718 #17 0x00007ffff7abde26 in PyEval_EvalFrameEx (f=0x297f250, throwflag=0) at Python/ceval.c:1880 #18 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff280c720, globals=0x909bf0, locals=0x0, args=0x297eae0, argcount=2, kws=0x297eaf0, kwcount=0, defs=0x0, defcount=0, closure=0x0) at Python/ceval.c:3253 #19 0x00007ffff7ac71b5 in fast_function (func=0x7ffff235b450, pp_stack=0x7fffffffb420, n=2, na=2, nk=0) at Python/ceval.c:4117 #20 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffb420, oparg=1) at Python/ceval.c:4042 #21 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x297e930, throwflag=0) at Python/ceval.c:2666 #22 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff280c5c0, globals=0x909bf0, locals=0x0, args=0x2f06e38, argcount=3, kws=0x2f06e50, kwcount=0, defs=0x7ffff2354f10, defcount=2, closure=0x0) at Python/ceval.c:3253 #23 0x00007ffff7ac71b5 in fast_function (func=0x7ffff235b3a8, pp_stack=0x7fffffffb910, n=3, na=3, nk=0) at Python/ceval.c:4117 #24 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffb910, oparg=2) at Python/ceval.c:4042 #25 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x2f06c90, throwflag=0) at Python/ceval.c:2666 #26 0x00007ffff7ac708a in fast_function (func=0x7ffff235b4f8, pp_stack=0x7fffffffbc90, n=2, na=2, nk=0) at Python/ceval.c:4107 #27 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffbc90, oparg=1) at Python/ceval.c:4042 #28 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x9c6fb0, throwflag=0) at Python/ceval.c:2666 #29 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff280a9e0, globals=0x909bf0, locals=0x0, args=0x9bd3b8, argcount=2, kws=0x9bd3c8, kwcount=0, defs=0x7ffff235a1d8, defcount=1, closure=0x0) at Python/ceval.c:3253 #30 0x00007ffff7ac71b5 in fast_function (func=0x7ffff2359e28, pp_stack=0x7fffffffc180, n=2, na=2, nk=0) at Python/ceval.c:4117 #31 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffc180, oparg=1) at Python/ceval.c:4042 #32 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x9bd220, throwflag=0) at Python/ceval.c:2666 #33 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff2806f60, globals=0x909bf0, locals=0x0, args=0x9cc360, argcount=2, kws=0x9cc370, kwcount=0, defs=0x7ffff235a168, defcount=1, closure=0x0) at Python/ceval.c:3253 #34 0x00007ffff7ac71b5 in fast_function (func=0x7ffff2359a38, pp_stack=0x7fffffffc670, n=2, na=2, nk=0) at Python/ceval.c:4117 #35 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffc670, oparg=1) at Python/ceval.c:4042 #36 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x9cc1c0, throwflag=0) at Python/ceval.c:2666 #37 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff6a9b510, globals=0x707970, locals=0x0, args=0x6f6f58, argcount=1, kws=0x6f6f60, kwcount=2, defs=0x7ffff2ea5b50, defcount=2, closure=0x0) at Python/ceval.c:3253 #38 0x00007ffff7ac71b5 in fast_function (func=0x7ffff2367450, pp_stack=0x7fffffffcb60, n=5, na=1, nk=2) at Python/ceval.c:4117 #39 0x00007ffff7ac6d76 in call_function (pp_stack=0x7fffffffcb60, oparg=512) at Python/ceval.c:4042 #40 0x00007ffff7ac16ba in PyEval_EvalFrameEx (f=0x6f6dd0, throwflag=0) at Python/ceval.c:2666 #41 0x00007ffff7ac40aa in PyEval_EvalCodeEx (co=0x7ffff7e2f1a0, globals=0x644f50, locals=0x644f50, args=0x0, argcount=0, kws=0x0, kwcount=0, defs=0x0, defcount=0, closure=0x0) at Python/ceval.c:3253 #42 0x00007ffff7ab9a88 in PyEval_EvalCode (co=0x7ffff7e2f1a0, globals=0x644f50, locals=0x644f50) at Python/ceval.c:667 #43 0x00007ffff7af836d in run_mod (mod=0x6e8c18, filename=0x7fffffffd88f "/home/simon/SAGE/debug/sage5.6.beta1/local/bin/sageipython", globals=0x644f50, locals=0x644f50, flags=0x7fffffffd090, arena=0x62d530) at Python/pythonrun.c:1347 #44 0x00007ffff7af82f3 in PyRun_FileExFlags (fp=0x6451e0, filename=0x7fffffffd88f "/home/simon/SAGE/debug/sage5.6.beta1/local/bin/sageipython", start=257, globals=0x644f50, locals=0x644f50, closeit=1, flags=0x7fffffffd090) at Python/pythonrun.c:1333 #45 0x00007ffff7af6aa0 in PyRun_SimpleFileExFlags (fp=0x6451e0, filename=0x7fffffffd88f "/home/simon/SAGE/debug/sage5.6.beta1/local/bin/sageipython", closeit=1, flags=0x7fffffffd090) at Python/pythonrun.c:937 #46 0x00007ffff7af6092 in PyRun_AnyFileExFlags (fp=0x6451e0, filename=0x7fffffffd88f "/home/simon/SAGE/debug/sage5.6.beta1/local/bin/sageipython", closeit=1, flags=0x7fffffffd090) at Python/pythonrun.c:741 #47 0x00007ffff7b12536 in Py_Main (argc=3, argv=0x7fffffffd218) at Modules/main.c:639 #48 0x00000000004007b4 in main (argc=3, argv=0x7fffffffd218) at ./Modules/python.c:23
Apply FGLMStrategy_sigon.patch
Install http://boxen.math.washington.edu/home/dreyer/spkg/polybori0.8.2.p0.spkg
Attachments (1)
Change History (30)
comment:1 Changed 7 years ago by
comment:2 Changed 7 years ago by
Could not reproduce in sageongentoo but we don't have "withpydebug" by default (can still build python with debugging symbols for gdb but not the stuff from pydebug). Investigating further.
comment:3 followup: ↓ 4 Changed 7 years ago by
PolyEntryVector::append
contains an assertion, which does not apply when compiled without DebugOptions. The actual problem is probably the ._change_ordering
, which never was a user command. It will yield inconsistencies (we should remove it) , so please use the ordering option of BooleanPolynomialRing
(DegNegLex
is dp_asc
). Perhaps that already fixed the problem.
comment:4 in reply to: ↑ 3 Changed 7 years ago by
Replying to AlexanderDreyer:
PolyEntryVector::append
contains an assertion, which does not apply when compiled without DebugOptions. The actual problem is probably the._change_ordering
, which never was a user command. It will yield inconsistencies (we should remove it) , so please use the ordering option ofBooleanPolynomialRing
(DegNegLex
isdp_asc
). Perhaps that already fixed the problem.
So, you say I should rewrite the test, so that ._change_ordering
is not used?
comment:5 Changed 7 years ago by
Do you mean doing something like:
sage: from polybori import * sage: B.<x,y,z> = BooleanPolynomialRing(order='lex') sage: C.<x,y,z> = BooleanPolynomialRing(order='degneglex') sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: sage: FGLMStrategy(B, C, ideal)
because it bangs as well with
terminate called after throwing an instance of 'std::runtime_error' what(): Operands come from different manager. /home/jp/boulot/sage/sage5.6.beta2/local/lib/libcsage.so(print_backtrace+0x31)[0x7ffcdf8aed7d] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libcsage.so(sigdie+0x14)[0x7ffcdf8aedaf] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libcsage.so(sage_signal_handler+0x1da)[0x7ffcdf8ae95b] /lib/x86_64linuxgnu/libpthread.so.0(+0xf310)[0x7ffce464a310] /lib/x86_64linuxgnu/libc.so.6(gsignal+0x35)[0x7ffce3bc6dd5] /lib/x86_64linuxgnu/libc.so.6(abort+0x17b)[0x7ffce3bc9efb] /usr/lib/x86_64linuxgnu/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x11d)[0x7ffcdf5dc89d] /usr/lib/x86_64linuxgnu/libstdc++.so.6(+0x63996)[0x7ffcdf5da996] /usr/lib/x86_64linuxgnu/libstdc++.so.6(+0x639c3)[0x7ffcdf5da9c3] /usr/lib/x86_64linuxgnu/libstdc++.so.6(+0x63bee)[0x7ffcdf5dabee] /home/jp/boulot/sage/sage5.6.beta2/local/lib/python2.7/sitepackages/sage/rings/polynomial/pbori.so(_ZNK8polybori16CApplyNodeFacadeINS_8BooleSetEP6DdNodeE16checkSameManagerERKS1_+0xc0)[0x7ffcbf85e9ba] /home/jp/boulot/sage/sage5.6.beta2/local/lib/python2.7/sitepackages/sage/rings/polynomial/pbori.so(_ZNK8polybori16CApplyNodeFacadeINS_8BooleSetEP6DdNodeE5applyIP15pbori_DdManagerEES1_PFS3_T_S3_S3_ERKS1_+0x2e)[0x7ffcbf8578a4] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpolybori_groebner0.8.2.so.0(_ZN8polybori8groebner19MinimalLeadingTerms7cleanupERKNS_13BooleMonomialE+0x69)[0x7ffcbef58319] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpolybori_groebner0.8.2.so.0(_ZN8polybori8groebner19MinimalLeadingTerms6updateERKNS_13BooleMonomialE+0x47)[0x7ffcbef58677] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpolybori_groebner0.8.2.so.0(_ZN8polybori8groebner17ReductionStrategy19setupSetsForElementERKNS0_9PolyEntryE+0x61)[0x7ffcbef57031] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpolybori_groebner0.8.2.so.0(_ZN8polybori8groebner12FGLMStrategyC2ERKNS_13BoolePolyRingES4_RKSt6vectorINS_15BoolePolynomialESaIS6_EE+0x513)[0x7ffcbef20a03] /home/jp/boulot/sage/sage5.6.beta2/local/lib/python2.7/sitepackages/sage/rings/polynomial/pbori.so(_ZN10WrappedPtrIN8polybori8groebner12FGLMStrategyEEC1INS0_13BoolePolyRingES5_St6vectorINS0_15BoolePolynomialESaIS7_EEEERKT_RKT0_RKT1_+0x3f)[0x7ffcbf85665d] /home/jp/boulot/sage/sage5.6.beta2/local/lib/python2.7/sitepackages/sage/rings/polynomial/pbori.so(+0x11c33e)[0x7ffcbf7fa33e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/python2.7/sitepackages/sage/rings/polynomial/pbori.so(+0x11b4fc)[0x7ffcbf7f94fc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0xe0657)[0x7ffce4937657] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyObject_Call+0x7f)[0x7ffce48a92c1] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15b7ad)[0x7ffce49b27ad] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aae5)[0x7ffce49b1ae5] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCode+0x5a)[0x7ffce49a4744] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15d3e6)[0x7ffce49b43e6] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x43c0)[0x7ffce49a8b25] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15af0e)[0x7ffce49b1f0e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15af0e)[0x7ffce49b1f0e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15ade3)[0x7ffce49b1de3] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15af0e)[0x7ffce49b1f0e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15af0e)[0x7ffce49b1f0e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15af0e)[0x7ffce49b1f0e] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x15aac9)[0x7ffce49b1ac9] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalFrameEx+0x7c67)[0x7ffce49ac3cc] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCodeEx+0x111c)[0x7ffce49aee02] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyEval_EvalCode+0x5a)[0x7ffce49a4744] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(+0x18bd81)[0x7ffce49e2d81] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyRun_FileExFlags+0xbf)[0x7ffce49e2d07] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyRun_SimpleFileExFlags+0x2be)[0x7ffce49e1504] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(PyRun_AnyFileExFlags+0x88)[0x7ffce49e0b62] /home/jp/boulot/sage/sage5.6.beta2/local/lib/libpython2.7.so.1.0(Py_Main+0xd29)[0x7ffce49fcb76] python(main+0x20)[0x40085c] /lib/x86_64linuxgnu/libc.so.6(__libc_start_main+0xed)[0x7ffce3bb36ad] python[0x400779]  Unhandled SIGABRT: An abort() occurred in Sage. This probably occurred because a *compiled* component of Sage has a bug in it and is not properly wrapped with sig_on(), sig_off(). You might want to run Sage under gdb with 'sage gdb' to debug this. Sage will now terminate.  /home/jp/boulot/sage/sage5.6.beta2/spkg/bin/sage : ligne 310 : 29842 Abandon sageipython "$@" i
wich seems better but should be caught properly if needed.
I'm not really aware of what the above code should do, so my attempt may be completely senseless (although I feel Sage should not crash in this case neither).
comment:6 followup: ↓ 7 Changed 7 years ago by
But the following which looks a little better seems to work:
sage: sage: from polybori import * sage: sage: B.<x,y,z> = BooleanPolynomialRing(order='lex') sage: C = B.clone(ordering=dp_asc) sage: sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: sage: sage: FGLMStrategy(B, C, ideal) <sage.rings.polynomial.pbori.FGLMStrategy object at 0x7379ab0>
comment:7 in reply to: ↑ 6 Changed 7 years ago by
We want that old_ring is in degneglex ordering. Shouldn't the following work
sage: from polybori import * sage: target_ring = BooleanPolynomialRing(names=['x','y','z']) sage: source_ring.<x,y,z> = BooleanPolynomialRing(order="DegNegLex") sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: z > y > x True sage: FGLMStrategy(source_ring, target_ring, ideal)
However, it still crashes!
Replying to jpflori:
But the following which looks a little better seems to work:
sage: sage: from polybori import * sage: sage: B.<x,y,z> = BooleanPolynomialRing(order='lex') sage: C = B.clone(ordering=dp_asc) sage: sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: sage: sage: FGLMStrategy(B, C, ideal) <sage.rings.polynomial.pbori.FGLMStrategy object at 0x7379ab0>
I can confirm that this works. However, big surprise:
The following very similar attempt still crashes:
sage: from polybori import * sage: target_ring = BooleanPolynomialRing(3,names=['x','y','z']) sage: source_ring = target_ring.clone(ordering=dp_asc) sage: x,y,z = source_ring.gens() sage: z > y > x True sage: ideal = BooleanPolynomialVector([x+z, y+z]) sage: FGLMStrategy(source_ring, target_ring, ideal) python: groebner/include/polybori/groebner/PolyEntryVector.h:74: virtual void polybori::groebner::PolyEntryVector::append(const polybori::groebner::PolyEntry&): Assertion `m_indices.checked(back().lead) == (size_type)1' failed.
So, Alexander, it seems that a misuse of ._change_ordering
is not the problem. There is a bug, that ought to be fixed.
comment:8 Changed 7 years ago by
The difference between my crashing example and JeanPierre's noncrashing example is that I test z > y > x
. No idea what that means.
comment:9 followup: ↓ 14 Changed 7 years ago by
I was able to reproduce Simon's example now with plain polybori. The problem is that the input ideal must be a reduced Gröbner basis (fglm does not compute a Groebner basis itself, it just converts). This is what the assertion complains about. But since a user can trigger this, an assertion is probably not the best idea.
I could patch polybori to throw an exception here. What do you think?
comment:10 Changed 7 years ago by
I suggest to
Apply FGLMStrategy_sigon.patch
and use the patched spkg here: http://boxen.math.washington.edu/home/dreyer/spkg/polybori0.8.2.p0.spkg
comment:11 Changed 7 years ago by
The spkg just applies the following patch:

groebner/include/polybori/groebner/PolyEntryVector.h
a b 71 71 virtual void append(const PolyEntry& element) { 72 72 m_data.push_back(element); 73 73 74 PBORI_ASSERT(m_indices.checked(back().lead) == (size_type)1); 74 #ifndef PBORI_NDEBUG 75 if(m_indices.checked(back().lead) != (size_type)1) 76 throw std::runtime_error("leading terms not unique when appending to PolyEntryVector"); 77 #endif 75 78 m_indices.insert(back(), size()  1); 76 79 } 77 80
comment:12 Changed 7 years ago by
 Status changed from new to needs_review
comment:13 Changed 7 years ago by
comment:14 in reply to: ↑ 9 ; followup: ↓ 15 Changed 7 years ago by
Replying to AlexanderDreyer:
I was able to reproduce Simon's example now with plain polybori. The problem is that the input ideal must be a reduced Gröbner basis (fglm does not compute a Groebner basis itself, it just converts). This is what the assertion complains about. But since a user can trigger this, an assertion is probably not the best idea.
I could patch polybori to throw an exception here. What do you think?
Good idea! Now we have just to make sure that Sage catch the exception (which it did not seem to do in my example at least).
comment:15 in reply to: ↑ 14 Changed 7 years ago by
Replying to jpflori:
I could patch polybori to throw an exception here. What do you think?
Good idea! Now we have just to make sure that Sage catch the exception (which it did not seem to do in my example at least).
Did apply the Sagelibrary patch, I mentioned above? (And rebuild?)
comment:16 Changed 7 years ago by
Also, perhaps the exception is not thrown at all. This is the case if PBORI_NDEBUG
is still set when building polybori. Did you reinstall polybori with SAGE_DEBUG=yes in the environment?
comment:17 Changed 7 years ago by
 Description modified (diff)
Ah, and of course, we have to fix the broken doctest. So please apply the recent FGLMStrategy_sigon.patch. I've also added an optional  debug doctest for the case above.
Apply FGLMStrategy_sigon.patch
comment:18 Changed 7 years ago by
 Description modified (diff)
comment:19 Changed 7 years ago by
Everything looks fine to me except for a spurious .orig file in the patches dir of the spkg.
comment:20 Changed 7 years ago by
Ah, sorry! I fixed that and replaced the spkg above.
comment:21 Changed 7 years ago by
 Reviewers set to JeanPierre Flori
 Status changed from needs_review to positive_review
It's fine now.
I think we should also open a follow up ticket to deprecate _change_ordering in Sage.
comment:22 followup: ↓ 23 Changed 7 years ago by
{{{_change_ordering}}} is a private method, i.e., it starts with an underscore. We don't need to deprecate it, we can simply remove it.
comment:23 in reply to: ↑ 22 Changed 7 years ago by
Replying to malb:
{{{_change_ordering}}} is a private method, i.e., it starts with an underscore. We don't need to deprecate it, we can simply remove it.
Should I update the patch, or do we need another ticket?
comment:24 followup: ↓ 25 Changed 7 years ago by
I'd say let's do this in another ticket. The issues are related because the bug was discovered in a doctest involving this method, but the fact that method should not be used is different.
But if you prefer to do it here, please do.
comment:25 in reply to: ↑ 24 ; followup: ↓ 26 Changed 7 years ago by
Replying to jpflori:
But if you prefer to do it here, please do.
No problem, I'd prefer a new ticket, too.
comment:26 in reply to: ↑ 25 Changed 7 years ago by
Replying to AlexanderDreyer:.
No problem, I'd prefer a new ticket, too.
I created #13900 for this purpose.
comment:27 Changed 7 years ago by
Indeed, _change_ordering
can simply be removed now (see #13900).
comment:28 Changed 7 years ago by
 Merged in set to sage5.6.beta3
 Resolution set to fixed
 Status changed from positive_review to closed
Very strange I don't remember seeing anything like it in sage on gentoo or lmnd. I am not convinced that it is just from python debugging unless we collaterally fixed this along with singular and linbox. Of course now I realise that it may be the result from a doctest so it may have been dormant on us all along.