On gentoo the real issue is with dot2tex which pulls in graphviz and pydot.
I noticed that dot2tex is an optional Sage package. Could this be the issue?
On Thursday, May 4, 2017 at 9:45:47 AM UTC-5, tsc...@ucdavis.edu wrote:
>
> I have graphviz installed as well. It does seem odd that graphviz would be
> the problem. My thought is more of that the DiGraph constructor is getting
> confused about the input. We might have to specify the input data to the
> DiGraph.
>
> Best,
> Travis
>
>
> On Thursday, May 4, 2017 at 9:14:28 AM UTC-5, Steven Trogdon wrote:
>>
>> I have system graphviz installed. Removing it allowed the posets.py test
>> to pass on sage-on-gentoo. Of course having and not having graphviz
>> installed has no effect on testing posets.py from vanilla Sage. The test
>> always passes. If graphviz is the source then it seems odd that system
>> graphviz is only affecting the test on debian.
>>
>> On Thursday, May 4, 2017 at 4:49:11 AM UTC-5, François wrote:
>>>
>>> And it doesn’t on my sage-on-gentoo install. I notice that graphviz
>>> is involved in the traceback and I don’t have graphviz installed
>>> currently.
>>> Would all the people with the failing test happen to have graphviz?
>>> And the one who don’t, not?
>>>
>>> François
>>>
>>> > On 4/05/2017, at 18:23, Steven Trogdon <steven....@gmail.com> wrote:
>>> >
>>> > The posets.py test fails here on my Gentoo machine with sage-on-gentoo
>>> installed, but with vanilla Sage on the same machine the test passes.
>>> >
>>> > On Sunday, April 30, 2017 at 5:59:55 AM UTC-5, Emmanuel Charpentier
>>> wrote:
>>> > On Debian testing runninng on Core I7 + 16 GB RAM, after fetching
>>> diffs over 8.0.beta3, I get three errors :
>>> >
>>> > ----------------------------------------------------------------------
>>> > sage -t --long src/sage/combinat/posets/posets.py # 1 doctest failed
>>> > sage -t --long src/sage/calculus/calculus.py # 1 doctest failed
>>> > sage -t --long src/sage/homology/simplicial_complex.py # 1 doctest
>>> failed
>>> > ----------------------------------------------------------------------
>>> >
>>> > Details : the first one is new AFAIK, and seems genuine :
>>> >
>>> > charpent@asus16-ec:/usr/local/sage-8$ sage -t --long
>>> src/sage/combinat/posets/posets.py
>>> > too many failed tests, not using stored timings
>>> > Running doctests with ID 2017-04-30-12-50-37-126fd53d.
>>> > Git branch: develop
>>> > Using --optional=database_gap,giacpy_sage,git_trac,mpir,python2,sage
>>> > Doctesting 1 file.
>>> > sage -t --long src/sage/combinat/posets/posets.py
>>> > **********************************************************************
>>> > File "src/sage/combinat/posets/posets.py", line 1742, in
>>> sage.combinat.posets.posets.FinitePoset.?
>>> > Failed example:
>>> > L.plot(figsize=12, border=True, element_shape='s',
>>> > element_size=400, element_color='white',
>>> > element_colors={'blue': F, 'green':
>>> L.double_irreducibles()},
>>> > cover_color='lightgray', cover_colors={'black':
>>> F_internal},
>>> > title='The Frattini\nsublattice in blue', fontsize=10)
>>> > Exception raised:
>>> > Traceback (most recent call last):
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/doctest/forker.py",
>>>
>>> line 509, in _run
>>> > self.compile_and_execute(example, compiler, test.globs)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/doctest/forker.py",
>>>
>>> line 872, in compile_and_execute
>>> > exec(compiled, globs)
>>> > File "<doctest sage.combinat.posets.posets.FinitePoset.?[12]>",
>>> line 5, in <module>
>>> > title='The Frattini\nsublattice in blue',
>>> fontsize=Integer(10))
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/combinat/posets/posets.py",
>>>
>>> line 1834, in plot
>>> > **kwds)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/misc/decorators.py",
>>>
>>> line 564, in wrapper
>>> > return func(*args, **options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/generic_graph.py",
>>>
>>> line 18733, in plot
>>> > return self.graphplot(**options).plot()
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/generic_graph.py",
>>>
>>> line 18384, in graphplot
>>> > return GraphPlot(graph=self, options=options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/graph_plot.py",
>>>
>>> line 262, in __init__
>>> > self.set_pos()
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/graph_plot.py",
>>>
>>> line 346, in set_pos
>>> > self._pos = self._graph.layout(**self._options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/generic_graph.py",
>>>
>>> line 17847, in layout
>>> > pos = getattr(self, "layout_%s"%layout)(dim = dim, **options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/digraph.py",
>>>
>>> line 2915, in layout_acyclic
>>> > return self.layout_graphviz(rankdir=rankdir, **options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/generic_graph.py",
>>>
>>> line 18315, in layout_graphviz
>>> > positions = dot2tex.dot2tex(self.graphviz_string(**options),
>>> format = "positions", prog = prog)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/misc/decorators.py",
>>>
>>> line 564, in wrapper
>>> > return func(*args, **options)
>>> > File
>>> "/usr/local/sage-8/local/lib/python2.7/site-packages/sage/graphs/generic_graph.py",
>>>
>>> line 19532, in graphviz_string
>>> > "%s is not a valid format for edge"%(edge)
>>> > AssertionError: [0, 4] is not a valid format for edge
>>> > **********************************************************************
>>> > 1 item had failures:
>>> > 1 of 37 in sage.combinat.posets.posets.FinitePoset.?
>>> > [1222 tests, 1 failure, 8.61 s]
>>> > ----------------------------------------------------------------------
>>> > sage -t --long src/sage/combinat/posets/posets.py # 1 doctest failed
>>> > ----------------------------------------------------------------------
>>> > Total time for all tests: 8.8 seconds
>>> > cpu time: 8.1 seconds
>>> > cumulative wall time: 8.6 seconds
>>> >
>>> > The second one has already been reported more than once :
>>> >
>>> > charpent@asus16-ec:/usr/local/sage-8$ sage -t --long
>>> src/sage/calculus/calculus.py
>>> > too many failed tests, not using stored timings
>>> > Running doctests with ID 2017-04-30-12-51-05-338d0836.
>>> > Git branch: develop
>>> > Using --optional=database_gap,giacpy_sage,git_trac,mpir,python2,sage
>>> > Doctesting 1 file.
>>> > sage -t --long src/sage/calculus/calculus.py
>>> > **********************************************************************
>>> > File "src/sage/calculus/calculus.py", line 1406, in
>>> sage.calculus.calculus.laplace
>>> > Failed example:
>>> > laplace(t^n, t, s, algorithm='giac')
>>> > Expected:
>>> > Traceback (most recent call last):
>>> > ...
>>> > NotImplementedError: Unable to parse Giac output:
>>> integrate(t^n*exp(-s*t),t,0,+infinity)
>>> > Got:
>>> > integration(t^n*e^(-s*t), t, 0, +Infinity)
>>> > **********************************************************************
>>> > 1 item had failures:
>>> > 1 of 39 in sage.calculus.calculus.laplace
>>> > [419 tests, 1 failure, 9.85 s]
>>> > ----------------------------------------------------------------------
>>> > sage -t --long src/sage/calculus/calculus.py # 1 doctest failed
>>> > ----------------------------------------------------------------------
>>> > Total time for all tests: 9.9 seconds
>>> > cpu time: 9.3 seconds
>>> > cumulative wall time: 9.9 seconds
>>> >
>>> > The third one is transient, i. e. passes when run standalone.
>>> >
>>> > HTH,
>>> >
>>> > --
>>> > Emmanuel Charpentier
>>> >
>>> > Le jeudi 27 avril 2017 23:56:10 UTC+2, 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
>>> >
>>> > 7177ef5 Updated SageMath version to 8.0.beta4
>>> > cffd8ca Trac #10070: make heaviside and step play nicely together.
>>> > 0aaa0fd Trac #22862: Invalid pointers in sympow on OpenSuSE
>>> > 4b9abab Trac #22839: Patch python2 to increase FD_SETSIZE on Cygwin
>>> > 9c0831c Trac #22838: Upgrade to Pynac-0.7.6
>>> > f1c06a5 Trac #22746: Update sage.lfunctions.dokchitser.Dokchitser to
>>> use only one gp interpreter
>>> > ffab656 Trac #20238: Move the Sage <-> PARI interface to a stand-alone
>>> package CyPari
>>> > 6f0a31d Trac #22860: ticket #22840 causes breakage with some linkers
>>> when the order is important.
>>> > 8553abb Trac #22644: Fix and test interact library
>>> > 42c0fa2 Trac #22117: LatticePoset: Add certificate for is_distributive
>>> > b3aee2d Trac #18545: Some examples to plot() for posets.
>>> > fa8ec79 Trac #16086: Python 3 preparation: Py2 vs. Py3 return value of
>>> write() in doctests
>>> > aec9477 Trac #22810: Pari initialization segfaults in Cygwin since
>>> #22633
>>> > b248d03 Trac #22691: Upgrade cysignals
>>> > d77ed66 Trac #22795: Fixing a typo in error message within finite
>>> subgroups of modular abelian varieties
>>> > b6308c9 Trac #22837: zeromq: don't run self-tests in parallel
>>> > c1f8784 Trac #22835: molien series for finite matrix gap groups in
>>> char 0
>>> > 8d16ba4 Trac #22215: Allow "sage -n jupyterlab"
>>> > 9a4febf Trac #21843: Update the .cython_version format to include all
>>> cythonize options
>>> > 33f91b5 Trac #21206: Add improved process shutdown code for
>>> PALPreader._iterate_list
>>> > f9ea9b8 Trac #22644: Fix and test interact library
>>> > f32d774 Trac #21889: add strongly regular (216,40,4,8)- and
>>> (540,187,58,68)-graphs to the database of SRGs
>>> > 3d51375 Trac #21045: Implement Zariski-VanKampen method to compute
>>> fundamental groups of complements of plane curves.
>>> > 2f5a28f Updated SageMath version to 8.0.beta3
>>> >
>>> >
>>> > --
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>>>
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