Sage 8.7.beta3 released

[Volker Braun]

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

832b97cd5d (tag: 8.7.beta3) Updated SageMath version to 8.7.beta3

732781e392 Trac #27193: point doc to an installed folder rather a source one in sage/homology/simplicial_set_examples.py

365c4a4fb2 Trac #26906: Fix broken pinfo magic for interface functions

f3b620f323 Trac #26722: py3: work on the sandpile problem

284e75ede1 Trac #25962: Upgrade to FriCAS 1.3.5

d122a72346 Trac #24889: Enumerate all genera of given signature, determinant and bounded scale of a jordan block.

dfcf0d5b4b Trac #18015: Empty graph latex fails

4fdf69cb24 Trac #27223: Fix legacy uninstall

d1a99e13be Trac #27224: Fix invalid uses of sig_on() in matrix.misc

74b4badf39 Trac #27140: make_any_gap_element() should not be called inside sig_on()

700570de6b Trac #27155: Fix and simplify libGAP error handling

3e7302b9be Trac #26992: Fix new (lib) gap on py3

337b33aea8 Trac #27178: Thematic tutorials: minor fix

2381df317e Trac #27136: pep8 in digraph_generators.py (part 3)

061a22b6cf Trac #27134: pep8 in digraph_generators.py (part 1)

9d1810060f Trac #27133: improve butterfly graph generator

ea7cdd816e Trac #27120: remove some duplicate imports

57a651d1e1 Trac #27067: py3: Simplicial complexes: fix is_isomorphic

3b81a6eadb Trac #27210: py3: fix doctests in partition_kleshchev

f2ca22fefa Trac #27207: py3: one partial fix for KR crystals

8f7371c7e4 Trac #27202: py3: fix doctests in random graphs generators

5ea4bf4435 Trac #27192: Make the default picklejar location a user location rather than a, potentially, system one

12a4395281 Trac #27182: spkg-configure.m4 for bzip2

ecfe146ef4 Trac #27152: Make the meataxe wrapper work with py3

3f39df0203 Trac #26787: Force C++11  as the C++ standard

42958e96f3 Trac #26639: geometry/cone.py: use generator expressions and future-proof range() iterator

7f44846a50 Trac #26315: Upgrade to Giac 1.5

b34ec0e2d1 Trac #26009: Add derivative method for SBox

9930e0045e Trac #25674: Upgrade R to 3.5.2

0f94d82ff7 Trac #10501: Deprecate adjoint in favor of adjugate

1318f4cd99 Trac #27209: py3: fix tests/stl_vector

5a8e94f639 Trac #27206: py3: some details in misc

7a26af9366 Trac #27203: py3: fix 8 doctests in generators/families.py

28b8821aa5 Trac #27201: Rename abs to __abs__ for UniversalCyclotomicField elements

d309824905 Trac #27200: update sagenb to version 1.1.2

3add2d91d8 Trac #27194: Py3: fix some doctests in riemann_surface

115a4e113a Trac #27191: Use SAGE_LIB instead of of a path derived from SAGE_LOCAL in sage/doctest/sources.py

feb8acf9b8 Trac #27189: Standardise access to SAGE_DOC_SRC in src/doc/

0fb443c087 Trac #27187: py3: tiny fix in src/doc/common/conf.py

5b40b509bd Trac #27184: py3: fix doctests in generic_graph (part 6) -- graphviz_string

16edf19a9d Trac #27181: py3: fix doctest in generic_graph (part 4)

e3021c8436 Trac #27180: py3: fix doctest in generic_graph (part 3) -- _build_flow_graph

6dc3588cfd Trac #27177: py3: some fixes in Heilbronn matrices

bef07442aa Trac #27172: 1 optional doctest failing in cmdline.py related to pandoc

fdd4c724db Trac #27169: Upgrade to FreeType 2.9.1

f0b0e54d32 Trac #27167: py3: fix doctest in distances_all_pairs.pyx

a9e1dedaf5 Trac #27166: remove deprecated classes NetworkXGraphDeprecated and NetworkXDiGraphDeprecated

33e42fd77d Trac #27159: py3: fix doctests in strongly_regular_db.pyx

3333f257f6 Trac #27158: py3: fix doctests in boost_graph.pyx

6505206560 Trac #27157: py3 fixes in interacts

3cd33bf32d Trac #27156: Update README now that `make` works with Python 3

151bc1c2e0 Trac #27153: py3: simplicial complex tests involving the Stanley-Reisner ring

5fd1bc63c8 Trac #27151: py3: fix doctests in vertex_separation.pyx

86bc701284 Trac #27149: py3: fix doctests in comparability.pyx

d1c9bf163c Trac #27148: py3: fix doctests in centrality.pyx

cb0c55968d Trac #27147: py3: fix doctests in dense_graph.pyx, sparse_graph.pyx, static_sparse_graph.pyx

4daa3d432d Trac #27145: py3: some fixes in modular/

8ddfaa04dd Trac #27144: py3: fix doctests in connectivity.pyx

16795e0a1d Trac #27142: bunch of various bad things

f6510fbf56 Trac #27141: Fix for conversion of Gamma function in Mathematica interface

18a12b81a2 Trac #27129: py3: fix other doctests in graph.py

25340496e6 Trac #27128: avoid splitting the problem if ncpus=1 in dancing_links

15669534de Trac #27117: Doctest Jupyter implementation of interact library

10125fd570 Trac #27072: py3: final fix for species

a8f8a4a98b Trac #27069: Inconsistent behavior with generator ordering in free Lie algebras

69459af0c8 Trac #27066: deprecate a few commands in global namespace

6f4ec46ca5 Trac #27062: MR5: note on what happens if an executable script is loaded

4ff0e5aad8 Trac #27029: Avoid calling vertices() in graph_isom_equivalent_non_edge_labeled_graph()

0eba5af097 Trac #27173: p_group_cohomology missing dependencies

a6cab5b519 (tag: 8.7.beta2) Updated SageMath version to 8.7.beta2

[Justin C. Walker]

> On Feb 8, 2019, at 11:27 , Volker Braun <vbrau...@gmail.com> wrote:
>
> 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

Built from fresh clone of the develop branch on three macOS systems, with no problems.

==================================

Testing (‘ptestlong’):

10.11.6 (mid-2015 MBP, Quad-core Core i7): all tests passed!

10.13.6 (2017 iMac Pro, 18-core Xeon W): one failure:
./sage -t --long --warn-long 66.8 src/sage/libs/singular/polynomial.pyx # 1 doctest failed
This test passed when run stand-alone.

10.14.2 (2017 MBP, Quad-core Core i7): all tests passed!

==================================

The failure on High Sierra (10.13) is puzzling. Anyone have an idea why this would be “transient”?

Justin

--
Justin C. Walker, Curmudgeon at Large
Director
Institute for the Enhancement of the Director's Income
-----------
Nobody knows the trouble I've been
-----------

[Emmanuel Charpentier]

On Debian testing running on coreI7 + 16 GB RAM, I get one permanent (reproducible) error :

----------------------------------------------------------------------

sage -t --long --warn-long 157.4 src/sage/libs/giac.py  # 3 doctests failed

----------------------------------------------------------------------

The relevant tests are :

charpent@zen-book-flip:/usr/local/sage-8$ sage -t --long --warn-long 157.4 src/sage/libs/giac.py  

Running doctests with ID 2019-02-10-07-47-27-b709e479.

Git branch: develop

Using --optional=dochtml,fricas,gap_packages,giacpy_sage,gmpy2,memlimit,mpir,python2,sage

Doctesting 1 file.

sage -t --long --warn-long 157.4 src/sage/libs/giac.py

**********************************************************************

File "src/sage/libs/giac.py", line 187, in sage.libs.giac.?

Failed example:

    B.is_groebner() # optional - giacpy_sage

Expected:

    True

Got:

    False

**********************************************************************

File "src/sage/libs/giac.py", line 197, in sage.libs.giac.?

Failed example:

    B.is_groebner()                                             # optional - giacpy_sage

Expected:

    True

Got:

    False

**********************************************************************

File "src/sage/libs/giac.py", line 199, in sage.libs.giac.?

Failed example:

    B.ideal() == I.elimination_ideal([P.gen(0), P.gen(2)])      # optional - giacpy_sage

Expected:

    True

Got:

    False

**********************************************************************

1 item had failures:

   3 of  39 in sage.libs.giac.?

    [62 tests, 3 failures, 34.93 s]

HTH...

[Sébastien Labbé]

Runing ptestlong with --optional=sage,optional,external, I get

Using --optional=bliss,cbc,ccache,cmake,cryptominisat,dot2tex,external,glucose,gmpy2,lrslib,memlimit,mpir,normaliz,notedown,pandoc_attributes,pycosat,pynormaliz,python2,rst2ipynb,sage

External software detected for doctesting: ffmpeg,graphviz,gurobi,imagemagick,internet,latex,pandoc

and

----------------------------------------------------------------------
sage -t --long src/sage/graphs/graph_latex.py  # 1 doctest failed
sage -t --long src/sage/combinat/designs/ext_rep.py  # 1 doctest failed
sage -t --long src/sage/sat/boolean_polynomials.py  # 1 doctest failed
sage -t --long src/sage/misc/persist.pyx  # 2 doctests failed
----------------------------------------------------------------------

The issue with boolean_polynomial is not reproducable. The other are reproducable.

See https://trac.sagemath.org/ticket/25536 for optioanal/external failing doctests.

The new issue with graph_latex is copied below:

sage -t --long src/sage/graphs/graph_latex.py
**********************************************************************
File "src/sage/graphs/graph_latex.py", line 1333, in sage.graphs.graph_latex.GraphLatex.dot2tex_picture
Failed example:
    print(g.latex_options().dot2tex_picture())  # optional - dot2tex graphviz
Expected:
    \begin{tikzpicture}[>=latex,line join=bevel,]
    %%
      \node (node_3) at (...bp,...bp) [draw,draw=none] {$\left(1, 1\right)$};
      \node (node_2) at (...bp,...bp) [draw,draw=none] {$\left(1, 0\right)$};
      \node (node_1) at (...bp,...bp) [draw,draw=none] {$\left(0, 1\right)$};
      \node (node_0) at (...bp,...bp) [draw,draw=none] {$\left(0, 0\right)$};
      \draw [black,->] (node_0) ..controls (...bp,...bp) and (...bp,...bp)  .. (node_3);
      \draw [black,->] (node_2) ..controls (...bp,...bp) and (...bp,...bp)  .. (node_1);
      \draw [black,->] (node_0) ..controls (...bp,...bp) and (...bp,...bp)  .. (node_1);
      \draw [black,->] (node_2) ..controls (...bp,...bp) and (...bp,...bp)  .. (node_3);
    %
    \end{tikzpicture}
Got:
    \begin{tikzpicture}[>=latex,line join=bevel,]
    %%
    \node (node_3) at (61.5bp,8.5bp) [draw,draw=none] {$\left(0, 1\right)$};
      \node (node_2) at (61.5bp,61.5bp) [draw,draw=none] {$\left(1, 0\right)$};
      \node (node_1) at (14.5bp,61.5bp) [draw,draw=none] {$\left(0, 0\right)$};
      \node (node_0) at (14.5bp,8.5bp) [draw,draw=none] {$\left(1, 1\right)$};
      \draw [black,->] (node_1) ..controls (28.308bp,45.517bp) and (39.027bp,33.886bp)  .. (node_3);
      \draw [black,->] (node_2) ..controls (61.5bp,46.195bp) and (61.5bp,35.966bp)  .. (node_3);
      \draw [black,->] (node_2) ..controls (47.692bp,45.517bp) and (36.973bp,33.886bp)  .. (node_0);
      \draw [black,->] (node_1) ..controls (14.5bp,46.195bp) and (14.5bp,35.966bp)  .. (node_0);
    %
    \end{tikzpicture}

**********************************************************************
1 item had failures:

   1 of  12 in sage.graphs.graph_latex.GraphLatex.dot2tex_picture
    0 tests not run because we ran out of time
    [199 tests, 1 failure, 4.14 s]

[Emmanuel Charpentier]

Identical results on another, smaller, Debian testing machine.

HTH,

[E. Madison Bray]

I am getting some mysterious new segfaults with this on Cygwin.

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[Emmanuel Charpentier]

This has now been reported as Trac#27306.

Le dimanche 10 février 2019 08:00:54 UTC+1, Emmanuel Charpentier a écrit :

[John H Palmieri]

On Saturday, February 9, 2019 at 7:08:36 PM UTC-8, Justin C. Walker wrote:

> On Feb 8, 2019, at 11:27 , Volker Braun <vbrau...@gmail.com> wrote:
>
> 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

Built from fresh clone of the develop branch on three macOS systems, with no problems.

==================================

Testing (‘ptestlong’):

10.11.6 (mid-2015 MBP, Quad-core Core i7): all tests passed!

10.13.6 (2017 iMac Pro, 18-core Xeon W): one failure:
  ./sage -t --long --warn-long 66.8 src/sage/libs/singular/polynomial.pyx # 1 doctest failed
This test passed when run stand-alone.  

10.14.2 (2017 MBP, Quad-core Core i7): all tests passed!

==================================

The failure on High Sierra (10.13) is puzzling.  Anyone have an idea why this would be “transient”?

I see this same failure intermittently, especially on a pretty fast machine with a pretty fast hard drive. I've opened up https://trac.sagemath.org/ticket/27336.