Sage 10.1.beta5 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

853d07099ce (tag: 10.1.beta5, github/develop) Updated SageMath version to 10.1.beta5
9161c6c27bf gh-35855: Extend `MAX_MODULUS` of `matrix_modn_dense_double.pyx`
42945352f77 gh-35854: correct deprecation messages
f846602923a gh-35850: Remove mention of defunct magic command "%bg" from the tutorial
f41eb7db674 gh-35843: Add a WSL prerequisites section
90ece168c3c gh-35842: Fix tests with scipy 1.11
0796e698004 gh-35831: Support setuptools 68.0.0
63eb1d700af gh-35827: some pep8 fixes in symbolic (E305 and others)
ecfe06b8f1f gh-35826: Fixes to support numpy 1.25.0
ebc71309fe5 gh-35822: most cython-lint suggestions fixed in algebras/
f9cb12c362e gh-35820: `sage.features`: Declare features as "standard" explicitly
9efdddb0b2b gh-35819: advance the linter (add more checks)
9d390f60d4c gh-35818: fully get rid of xrange() in pyx files
834144943dc gh-35816: `sage.misc.timing`: Split out from `sage.misc.misc`
65ceff81bbb gh-35809: Ensure GCD in `normalize_coordinates` for projective morphisms
404d9e5e7f4 gh-35808: .github/workflows/doc-build.yml: Fix generation of CHANGES.html
c80cc11d4c9 gh-35805: gap: use libgap API for int conversion
6b6475d64eb gh-35798: Replace imports from `sage.geometry...all`, update relint pattern
a7a70f0e5e2 gh-35795: Fix copyright headers in function fields
53139f79ded gh-35794: tox.ini, .github/workflows/docker.yml: Add almalinux
41d81136451 gh-35792: cleaning some things remaining from python 2
fb0ae6658cc gh-35789: more arguments for simplify
f3d389ddf2a gh-35785: build/pkgs/onetbb: Add distros/opensuse.txt
ffac6e0e197 gh-35782: Allow partial result in minimal_model, and translate OS-algebra to cdga
dc94b93e435 gh-35774: Modularization fixes for `fast_callable` interpreters
615fbb8659f gh-35761: gap: switch more code to offical libgap APIs
630d1ff712f gh-35755: Fix optional SnapPy doctests after #35665
ec284872321 gh-35742: `sage.combinat`: More `# optional` annotations
29daacb7579 gh-35707: Make Sage work with maxima 5.47
a6ab2f6a95c gh-35668: Hide features (PR to migrated Trac ticket #34185)
39e0bc0ad99 gh-35645: Russian notation for tableaux and minor bug fix
6d408e6c3d3 gh-35604: `sage -docbuild all FORMAT`: Run `make doc-FORMAT`
537bc255e9f gh-35344: Update to bliss 0.77
3230f00aeb4 (tag: 10.1.beta4) Updated SageMath version to 10.1.beta4

[David Coudert]

Thanks for this release.

After incremental update on fedora 35, I had the following doctest errors.

sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/generic_graph.py  # 15 doctests failed

sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/generators/families.py  # 2 doctests failed

sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/bliss.pyx  # 42 doctests failed

Apparently bliss has not been (correctly) updated during incremental update. After running ./sage -i bliss, I don't have these errors anymore.

However, I have a few warnings:

sage -t --long --random-seed=290123504548484623481640699812773564886 src/sage/graphs/generic_graph.py

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

File "src/sage/graphs/generic_graph.py", line 2006, in sage.graphs.generic_graph.GenericGraph.adjacency_matrix

Warning: Variable 'M' referenced here was set only in doctest marked '# optional - sage.modules'

    M[2, 2] = 1

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

File "src/sage/graphs/generic_graph.py", line 5084, in sage.graphs.generic_graph.GenericGraph.cycle_basis

Warning: Variable 'basis' referenced here was set only in doctest marked '# optional - networkx'

    edge_space.span(basis_as_vectors).rank() == len(basis)                # optional - sage.modules sage.rings.finite_rings

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

File "src/sage/graphs/generic_graph.py", line 17305, in sage.graphs.generic_graph.GenericGraph.?

Warning: Variable 'd2' referenced here was set only in doctest marked '# optional - networkx'

    d1 == d2 == d3 == d4

    [3890 tests, 35.49 s]

Surprizingly, on macOS I don't see the same warnings:

sage -t --long --random-seed=245923686717559167414566898310223623085 src/sage/graphs/generic_graph.py

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

File "src/sage/graphs/generic_graph.py", line 2006, in sage.graphs.generic_graph.GenericGraph.adjacency_matrix

Warning: Variable 'M' referenced here was set only in doctest marked '# optional - sage.modules'

    M[2, 2] = 1

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

File "src/sage/graphs/generic_graph.py", line 5083, in sage.graphs.generic_graph.GenericGraph.cycle_basis

Warning: Variable 'basis' referenced here was set only in doctest marked '# optional - networkx'

    basis_as_vectors = [cycle_to_vector(_) for _ in basis]                # optional - sage.modules sage.rings.finite_rings

    [3890 tests, 27.53 s]

Best,

David.

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[Dima Pasechnik]

On Sun, Jul 2, 2023 at 10:21 AM David Coudert <david....@gmail.com> wrote:
>
> Thanks for this release.
>
> After incremental update on fedora 35, I had the following doctest errors.
>
> sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/generic_graph.py # 15 doctests failed
> sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/generators/families.py # 2 doctests failed
> sage -t --long --random-seed=152397713735156567863222915477684656337 src/sage/graphs/bliss.pyx # 42 doctests failed
>
> Apparently bliss has not been (correctly) updated during incremental update. After running ./sage -i bliss, I don't have these errors anymore.

Fedora 35 (updates) has the right version of bliss, install it
instead, and never rebuild bliss with Sage-
but this needs https://github.com/sagemath/sage/pull/35830 reviewed and merged.

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/40BDECD6-8850-4FE0-9DF5-D67A2A61A106%40gmail.com.

[Emmanuel Charpentier]

On Debian testing running on core I7 + 16 GB RAM, upgrading 10.1.beta4 to 10.1.beta5 and running ptestlong gives one transient failure :

---------------------------------------------------------------------- sage -t --long --warn-long 221.1 --random-seed=130377515764620631234099015408919010647 src/sage/libs/giac/__init__.py # Timed out ----------------------------------------------------------------------

whch passes when ran standalone :

charpent@zen-book-flip:/usr/local/sage-10$ sage -t --long --warn-long 221.1 --random-seed=130377515764620631234099015408919010647 src/sage/libs/giac/__init__.py # Timed out Running doctests with ID 2023-07-02-11-51-35-32047324. Git branch: develop Git ref: 10.1.beta0-863-g853d07099c Running with SAGE_LOCAL='/usr/local/sage-10/local' and SAGE_VENV='/usr/local/sage-10/local/var/lib/sage/venv-python3.11' Using --optional=debian,dot2tex,fricas,gap_jupyter,gap_packages,libsemigroups,msolve,pip,pysingular,saclib,sage,sage_spkg,singular_jupyter Features to be detected: 4ti2,benzene,bliss,buckygen,conway_polynomials,csdp,cvxopt,cvxopt,database_cremona_ellcurve,database_cremona_mini_ellcurve,database_cubic_hecke,database_jones_numfield,database_knotinfo,dvipng,fpylll,gfan,graphviz,imagemagick,ipython,jupymake,kenzo,latte_int,lrcalc_python,lrslib,mcqd,meataxe,mpmath,msolve,nauty,networkx,numpy,palp,pandoc,pdf2svg,pdftocairo,pexpect,phitigra,pillow,plantri,polytopes_db,polytopes_db_4d,pplpy,primecountpy,ptyprocess,pynormaliz,pyparsing,python_igraph,requests,rubiks,sage.combinat,sage.geometry.polyhedron,sage.graphs,sage.groups,sage.libs.flint,sage.libs.gap,sage.libs.ntl,sage.libs.pari,sage.libs.singular,sage.misc.cython,sage.modular,sage.modules,sage.plot,sage.rings.finite_rings,sage.rings.function_field,sage.rings.number_field,sage.rings.padics,sage.rings.polynomial.pbori,sage.rings.real_double,sage.rings.real_mpfr,sage.schemes,sage.symbolic,sage_numerical_backends_coin,sagemath_doc_html,scipy,singular,sphinx,sympy,tdlib Doctesting 1 file. sage -t --long --warn-long 221.1 --random-seed=130377515764620631234099015408919010647 src/sage/libs/giac/__init__.py ********************************************************************** File "src/sage/libs/giac/__init__.py", line 208, in sage.libs.giac.? Warning, slow doctest: B1.is_groebner() # long time (20s) Test ran for 904.08 s, check ran for 0.00 s [62 tests, 932.11 s] ---------------------------------------------------------------------- All tests passed! ---------------------------------------------------------------------- Total time for all tests: 937.2 seconds cpu time: 934.1 seconds cumulative wall time: 932.1 seconds

One notes that this test needed more than 4 times the --warn-long time…

HTH,

​