On Fri, Nov 29, 2019 at 1:36 PM Emmanuel Charpentier <[email protected]> wrote: > > > > Le vendredi 29 novembre 2019 12:43:55 UTC+1, Dima Pasechnik a écrit : >> >> on that machine, could you >> >> ./sage -f gap_packages >> >> and try again? > > > Done. No relief :-(. Your test on SRG_280_135_70_60 just took about 5 minutes > to fail (same messages as before, IIRC). > >> >> It seems that GAP's AtlasRep package is misbehaving for >> you - it could be due to the fact that it needs internet >> to pull data initially (and caches it): > > > Aha ! My problematic machine is stuck behind our "public-corporate" firewall > (i. e. a corporate firewall done wrong...). What can get used varies by > protocol: > > HTTP and HTTPS work, using specfic proxy addresses ; > I have to use passive FTP mode if I need FTP (more and more rare...) ; > SSH is open. > > What does AtlasRep uses ? > it uses HTTP (either via wget, or using GAP package io) it will be wget if io (from gap_packages) is not installed.
There are configuration parameters for AtlasRep and io packages that govern how files are downloaded, but I don't know details, read on http://www.math.rwth-aachen.de/~Thomas.Breuer/atlasrep/doc/chap0.html http://gap-packages.github.io/io/doc/chap0.html it might be easier to copy, from the non-firewalled machine on which all these tests pass, the contents of local/share/gap/pkg/atlasrep HTH Dima >> >> cf. >> >> http://www.math.rwth-aachen.de/~Thomas.Breuer/atlasrep/ >> Note that the package archives do NOT contain the database part of the >> package; the GAP interface accesses the data on demand via the >> internet. >> >> On Fri, Nov 29, 2019 at 11:35 AM Emmanuel Charpentier >> <[email protected]> wrote: >> > >> > Well... applying Trac#28818 didn't solve my problem. I cut'n'pasted the >> > end of what is printed by make ptestalllong in the enclosed file >> > end_of_ptestalllong.txt. >> > >> > HTH... >> > >> > Le vendredi 29 novembre 2019 11:19:41 UTC+1, Emmanuel Charpentier a écrit : >> >> >> >> I'll try that patch on my problematic machine and report (but that won't >> >> be fast...). >> >> >> >> Le vendredi 29 novembre 2019 00:52:43 UTC+1, Dima Pasechnik a écrit : >> >>> >> >>> On Thu, Nov 28, 2019 at 7:45 PM Dima Pasechnik <[email protected]> wrote: >> >>> > >> >>> > what does happen if you run >> >>> > >> >>> > sage: from sage.graphs.strongly_regular_db import SRG_280_135_70_60 >> >>> > sage: SRG_280_135_70_60() >> >>> > >> >>> > Does it print >> >>> > >> >>> > J_2 on cosets of 3.PGL(2,9): Graph on 280 vertices >> >>> >> >>> here is a ticket that improves this function by switching from GAP to >> >>> libGAP interface, >> >>> please review >> >>> https://trac.sagemath.org/ticket/28818 >> >>> >> >>> Perhaps that was the general flakiness of pexpect that caused that >> >>> failure. >> >>> >> >>> Dima >> >>> > >> >>> > ? >> >>> > >> >>> > >> >>> > On Thu, 28 Nov 2019, 19:06 Emmanuel Charpentier, >> >>> > <[email protected]> wrote: >> >>> >> >> >>> >> After rebuilding from scratch, reinstalling packages (this time >> >>> >> including gap_packages), ptestlong gives me : >> >>> >> >> >>> >> no transient failure >> >>> >> the usual permanent failure on gap_packages >> >>> >> and a very strange, reproducible failure on >> >>> >> rc/sage/graphs/strongly_regular_db.pyx. >> >>> >> >> >>> >> >> >>> >> Details on the latter : >> >>> >> >> >>> >> charpent@p-202-021:/usr/local/sage-9$ sage -t --long --warn-long 53.5 >> >>> >> src/sage/graphs/strongly_regular_db.pyx # 4 doctests failed >> >>> >> Running doctests with ID 2019-11-28-19-21-27-1f4d95ea. >> >>> >> Git branch: develop >> >>> >> Using >> >>> >> --optional=build,dochtml,dot2tex,fricas,gap_packages,giacpy_sage,libsemigroups,memlimit,python2,sage,sagenb >> >>> >> Doctesting 1 file. >> >>> >> sage -t --long --warn-long 53.5 >> >>> >> src/sage/graphs/strongly_regular_db.pyx >> >>> >> ********************************************************************** >> >>> >> File "src/sage/graphs/strongly_regular_db.pyx", line 2242, in >> >>> >> sage.graphs.strongly_regular_db.SRG_280_135_70_60 >> >>> >> Failed example: >> >>> >> g=SRG_280_135_70_60() # long time # optional - >> >>> >> gap_packages >> >>> >> Exception raised: >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/gap.py", >> >>> >> line 769, in _eval_line >> >>> >> raise RuntimeError("%s produced error output\n%s\n >> >>> >> executing %s"%(self, error,line)) >> >>> >> RuntimeError: Gap produced error output >> >>> >> Error, Record Element: <rec> must be a record (not a boolean or >> >>> >> fail) >> >>> >> >> >>> >> executing \$sage1:=AtlasGenerators("J2",2).generators;; >> >>> >> >> >>> >> During handling of the above exception, another exception >> >>> >> occurred: >> >>> >> >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/expect.py", >> >>> >> line 1471, in __init__ >> >>> >> self._name = parent._create(value, name=name) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/interface.py", >> >>> >> line 491, in _create >> >>> >> self.set(name, value) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/gap.py", >> >>> >> line 1427, in set >> >>> >> self._eval_line(cmd, allow_use_file=True) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/gap.py", >> >>> >> line 803, in _eval_line >> >>> >> raise RuntimeError(exc) >> >>> >> RuntimeError: Gap produced error output >> >>> >> Error, Record Element: <rec> must be a record (not a boolean or >> >>> >> fail) >> >>> >> >> >>> >> executing \$sage1:=AtlasGenerators("J2",2).generators;; >> >>> >> >> >>> >> During handling of the above exception, another exception >> >>> >> occurred: >> >>> >> >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 681, in _run >> >>> >> self.compile_and_execute(example, compiler, test.globs) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 1123, in compile_and_execute >> >>> >> exec(compiled, globs) >> >>> >> File "<doctest >> >>> >> sage.graphs.strongly_regular_db.SRG_280_135_70_60[1]>", line 1, in >> >>> >> <module> >> >>> >> g=SRG_280_135_70_60() # long time # optional >> >>> >> - gap_packages >> >>> >> File "sage/graphs/strongly_regular_db.pyx", line 2253, in >> >>> >> sage.graphs.strongly_regular_db.SRG_280_135_70_60 >> >>> >> (build/cythonized/sage/graphs/strongly_regular_db.c:34308) >> >>> >> J2 = >> >>> >> PermutationGroup(gap('AtlasGenerators("J2",2).generators')) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/interface.py", >> >>> >> line 288, in __call__ >> >>> >> return cls(self, x, name=name) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/expect.py", >> >>> >> line 1476, in __init__ >> >>> >> raise_(TypeError, TypeError(*x.args), sys.exc_info()[2]) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/six.py", line >> >>> >> 692, in reraise >> >>> >> raise value.with_traceback(tb) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/expect.py", >> >>> >> line 1471, in __init__ >> >>> >> self._name = parent._create(value, name=name) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/interface.py", >> >>> >> line 491, in _create >> >>> >> self.set(name, value) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/gap.py", >> >>> >> line 1427, in set >> >>> >> self._eval_line(cmd, allow_use_file=True) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/interfaces/gap.py", >> >>> >> line 803, in _eval_line >> >>> >> raise RuntimeError(exc) >> >>> >> TypeError: Gap produced error output >> >>> >> Error, Record Element: <rec> must be a record (not a boolean or >> >>> >> fail) >> >>> >> >> >>> >> executing \$sage1:=AtlasGenerators("J2",2).generators;; >> >>> >> ********************************************************************** >> >>> >> File "src/sage/graphs/strongly_regular_db.pyx", line 2243, in >> >>> >> sage.graphs.strongly_regular_db.SRG_280_135_70_60 >> >>> >> Failed example: >> >>> >> g.is_strongly_regular(parameters=True) # long time # optional - >> >>> >> gap_packages >> >>> >> Exception raised: >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 681, in _run >> >>> >> self.compile_and_execute(example, compiler, test.globs) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 1123, in compile_and_execute >> >>> >> exec(compiled, globs) >> >>> >> File "<doctest >> >>> >> sage.graphs.strongly_regular_db.SRG_280_135_70_60[2]>", line 1, in >> >>> >> <module> >> >>> >> g.is_strongly_regular(parameters=True) # long time # optional >> >>> >> - gap_packages >> >>> >> NameError: name 'g' is not defined >> >>> >> ********************************************************************** >> >>> >> File "src/sage/graphs/strongly_regular_db.pyx", line 2349, in >> >>> >> sage.graphs.strongly_regular_db.SRG_416_100_36_20 >> >>> >> Failed example: >> >>> >> g = SRG_416_100_36_20() # optional - gap_packages >> >>> >> # long time >> >>> >> Exception raised: >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 681, in _run >> >>> >> self.compile_and_execute(example, compiler, test.globs) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 1123, in compile_and_execute >> >>> >> exec(compiled, globs) >> >>> >> File "<doctest >> >>> >> sage.graphs.strongly_regular_db.SRG_416_100_36_20[1]>", line 1, in >> >>> >> <module> >> >>> >> g = SRG_416_100_36_20() # optional - >> >>> >> gap_packages # long time >> >>> >> File "sage/graphs/strongly_regular_db.pyx", line 2359, in >> >>> >> sage.graphs.strongly_regular_db.SRG_416_100_36_20 >> >>> >> (build/cythonized/sage/graphs/strongly_regular_db.c:36484) >> >>> >> h.add_edges(g.Orbit([1,5],libgap.OnSets)) >> >>> >> File "sage/libs/gap/element.pyx", line 2666, in >> >>> >> sage.libs.gap.element.GapElement_MethodProxy.__call__ >> >>> >> (build/cythonized/sage/libs/gap/element.c:20291) >> >>> >> return GapElement_Function.__call__(self, * >> >>> >> ([self.first_argument] + list(args))) >> >>> >> File "sage/libs/gap/element.pyx", line 2514, in >> >>> >> sage.libs.gap.element.GapElement_Function.__call__ >> >>> >> (build/cythonized/sage/libs/gap/element.c:19304) >> >>> >> sig_on() >> >>> >> sage.libs.gap.util.GAPError: Error, no method found! Error, no >> >>> >> 1st choice method found for `GeneratorsOfMagmaWithInverses' on 1 >> >>> >> arguments >> >>> >> The 1st argument is 'fail' which might point to an earlier problem >> >>> >> ********************************************************************** >> >>> >> File "src/sage/graphs/strongly_regular_db.pyx", line 2350, in >> >>> >> sage.graphs.strongly_regular_db.SRG_416_100_36_20 >> >>> >> Failed example: >> >>> >> g.is_strongly_regular(parameters=True) # optional - gap_packages >> >>> >> # long time >> >>> >> Exception raised: >> >>> >> Traceback (most recent call last): >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 681, in _run >> >>> >> self.compile_and_execute(example, compiler, test.globs) >> >>> >> File >> >>> >> "/usr/local/sage-9/local/lib/python3.7/site-packages/sage/doctest/forker.py", >> >>> >> line 1123, in compile_and_execute >> >>> >> exec(compiled, globs) >> >>> >> File "<doctest >> >>> >> sage.graphs.strongly_regular_db.SRG_416_100_36_20[2]>", line 1, in >> >>> >> <module> >> >>> >> g.is_strongly_regular(parameters=True) # optional - >> >>> >> gap_packages # long time >> >>> >> NameError: name 'g' is not defined >> >>> >> ********************************************************************** >> >>> >> 2 items had failures: >> >>> >> 2 of 4 in sage.graphs.strongly_regular_db.SRG_280_135_70_60 >> >>> >> 2 of 4 in sage.graphs.strongly_regular_db.SRG_416_100_36_20 >> >>> >> [334 tests, 4 failures, 812.98 s] >> >>> >> ---------------------------------------------------------------------- >> >>> >> sage -t --long --warn-long 53.5 >> >>> >> src/sage/graphs/strongly_regular_db.pyx # 4 doctests failed >> >>> >> ---------------------------------------------------------------------- >> >>> >> Total time for all tests: 813.1 seconds >> >>> >> cpu time: 27.9 seconds >> >>> >> cumulative wall time: 813.0 seconds >> >>> >> >> >>> >> The discrepancy between CPU time and elapsed time is puzzling. It s >> >>> >> not an artifact : a system monitor confirmed that CPU activity was >> >>> >> minimal during most of this test. >> >>> >> >> >>> >> I have been unable to reproduce the problem on my other machine, >> >>> >> running the same rebuilt 9.0.beta7, where this tests passes without >> >>> >> any failure. >> >>> >> >> >>> >> Cherry on the cake: I have been unable to run ptestalllong on this >> >>> >> machine : this (reproducibly !) dies with a "too many open files" >> >>> >> error (not captured in the log) about halfway, after a (failed) >> >>> >> attempt to run sage -t --long >> >>> >> src/sage/groups/perm_gps/permgroup_named.py, which passes normally on >> >>> >> the other machine. >> >>> >> >> >>> >> Last lines of the log: >> >>> >> >> >>> >> Killing test src/sage/groups/perm_gps/permgroup_named.py >> >>> >> Killing test src/sage/combinat/designs/twographs.py >> >>> >> Killing test src/sage/databases/findstat.py >> >>> >> ---------------------------------------------------------------------- >> >>> >> sage -t --long src/sage/graphs/strongly_regular_db.pyx # 5 doctests >> >>> >> failed >> >>> >> sage -t --long src/sage/graphs/generators/smallgraphs.py # 6 >> >>> >> doctests failed >> >>> >> sage -t --long src/sage/plot/animate.py # 7 doctests failed >> >>> >> sage -t --long src/sage/combinat/posets/posets.py # 1 doctest failed >> >>> >> sage -t --long src/sage/combinat/matrices/hadamard_matrix.py # 2 >> >>> >> doctests failed >> >>> >> sage -t --long src/sage/misc/latex.py # 1 doctest failed >> >>> >> sage -t --long src/sage/combinat/designs/ext_rep.py # 2 doctests >> >>> >> failed >> >>> >> sage -t --long src/sage/coding/databases.py # 2 doctests failed >> >>> >> sage -t --long src/sage/misc/persist.pyx # 2 doctests failed >> >>> >> sage -t --long src/sage/repl/load.py # 1 doctest failed >> >>> >> Doctests interrupted: 1444/3793 files tested >> >>> >> ---------------------------------------------------------------------- >> >>> >> >> >>> >> >> >>> >> Any hint ? >> >>> >> >> >>> >> >> >>> >> >> >>> >> Le mercredi 27 novembre 2019 14:56:36 UTC+1, Emmanuel Charpentier a >> >>> >> écrit : >> >>> >>> >> >>> >>> Doubleplusungood... >> >>> >>> >> >>> >>> On Deboan testing running on core i5 + 8 GB RAM, ptestalllong gets >> >>> >>> me (part of) the usual suspects (transient failures, plus 6 (six) >> >>> >>> permanent failures due to abort: >> >>> >>> >> >>> >>> | File | Result >> >>> >>> | P/T | >> >>> >>> |----------------------------------------------------------+---------------------+-----| >> >>> >>> | src/sage/crypto/mq/sr.py | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/rings/polynomial/multi_polynomial_sequence.py | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/combinat/posets/posets.py | 1 >> >>> >>> doctest failed | T | >> >>> >>> | src/sage/plot/animate.py | 7 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/combinat/matrices/hadamard_matrix.py | 2 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/rings/polynomial/pbori.pyx | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/misc/latex.py | 1 >> >>> >>> doctest failed | T | >> >>> >>> | src/sage/coding/databases.py | 2 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/misc/persist.pyx | 2 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/repl/load.py | 1 >> >>> >>> doctest failed | T | >> >>> >>> | src/sage/graphs/graph_latex.py | 2 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/rings/polynomial/polynomial_ring_constructor.py | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/sat/solvers/dimacs.py | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/doc/en/reference/sat/index.rst | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/sat/boolean_polynomials.py | Killed >> >>> >>> due to abort | P | >> >>> >>> | src/sage/misc/remote_file.py | 2 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/databases/findstat.py | 7 >> >>> >>> doctests failed | T | >> >>> >>> | src/sage/interfaces/magma_free.py | 2 >> >>> >>> doctests failed | T | >> >>> >>> >> >>> >>> Details : see the enclose checkerrs.txt >> >>> >>> >> >>> >>> HTH, >> >>> >>> >> >>> >>> Le mercredi 27 novembre 2019 01:28:33 UTC+1, Volker Braun a écrit : >> >>> >>>> >> >>> >>>> As always, you can get the latest beta version from the "develop" >> >>> >>>> git branch. Alternatively, the self-contained source tarball is at >> >>> >>>> http://www.sagemath.org/download-latest.html >> >>> >>>> >> >>> >>>> >> >>> >>>> d48a21c149 (tag: 9.0.beta7, trac/develop) Updated SageMath version >> >>> >>>> to 9.0.beta7 >> >>> >>>> 22426a509b Trac #28797: 32-bit Python 3 failures in combinat >> >>> >>>> 54072f6c3b Trac #28795: Python 3 overflow in IntegerModRing pow >> >>> >>>> 7f2572fcdf Trac #28685: Upgrade from beautifulsoup to beautifulsoup4 >> >>> >>>> c597ceea70 Trac #28737: remove deprecated stuff in old coercion >> >>> >>>> model >> >>> >>>> a5c1185e7c Trac #28736: fix Texture for negative inputs >> >>> >>>> 6c66325a63 Trac #28698: py3: HTML documentation for GlobalOptions >> >>> >>>> does not show up correctly >> >>> >>>> aa0ac42b16 Trac #28675: Deprecate GraphicsArray import from >> >>> >>>> sage.plot.graphics >> >>> >>>> 5882b7f376 Trac #28564: Tensor Fields and Sections: Naming >> >>> >>>> Consistencies >> >>> >>>> 8f9b67d25c Trac #28304: add type information to _repr_ of Macaulay2 >> >>> >>>> elements >> >>> >>>> e6e616380a Trac #28214: Compute and display graph of nth-preimage >> >>> >>>> tree >> >>> >>>> a5bb40f91c Trac #27838: 5 internet doctests failing in findstat.py >> >>> >>>> 6553536757 Trac #27790: compatibility with cplex 12.9 >> >>> >>>> 3c6a9108c1 Trac #23816: implement left action of matrices on scheme >> >>> >>>> points >> >>> >>>> 9c6f3dab7f Trac #28732: update sagetex to version 3.4 >> >>> >>>> f856552b81 Trac #28748: Python 3 debug build fails to start >> >>> >>>> 232ae1bddc (tag: 9.0.beta6) Updated SageMath version to 9.0.beta6 >> >>> >>>> >> >>> >> -- >> >>> >> You received this message because you are subscribed to the Google >> >>> >> Groups "sage-release" group. >> >>> >> To unsubscribe from this group and stop receiving emails from it, >> >>> >> send an email to [email protected]. >> >>> >> To view this discussion on the web visit >> >>> >> https://groups.google.com/d/msgid/sage-release/6f12ad28-90ce-44d5-9393-fb62dac58ade%40googlegroups.com. >> > >> > -- >> > You received this message because you are subscribed to the Google Groups >> > "sage-release" group. >> > To unsubscribe from this group and stop receiving emails from it, send an >> > email to [email protected]. >> > To view this discussion on the web visit >> > https://groups.google.com/d/msgid/sage-release/58a2ac85-5054-4748-afce-e53edc1376bb%40googlegroups.com. > > -- > You received this message because you are subscribed to the Google Groups > "sage-release" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To view this discussion on the web visit > https://groups.google.com/d/msgid/sage-release/5f536c04-4443-47d5-af9e-70cd80a50740%40googlegroups.com. -- You received this message because you are subscribed to the Google Groups "sage-release" group. 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