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Fix minor documentation formatting issues in dancing links #34567

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Kerl13 opened this issue Sep 21, 2022 · 8 comments
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Fix minor documentation formatting issues in dancing links #34567

Kerl13 opened this issue Sep 21, 2022 · 8 comments

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@Kerl13
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Kerl13 commented Sep 21, 2022

Component: documentation

Author: Martin Pépin

Branch: 1c9e627

Reviewer: Frédéric Chapoton

Issue created by migration from https://trac.sagemath.org/ticket/34567

@Kerl13 Kerl13 added this to the sage-9.8 milestone Sep 21, 2022
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Kerl13 commented Sep 21, 2022

Author: Martin Pépin

@fchapoton
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Reviewer: Frédéric Chapoton

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comment:3

ok, feu vert

@vbraun
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vbraun commented Sep 29, 2022

Changed branch from u/MartinPepin/dancing_links_docs_formatting to 1c9e627

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Changed commit from 1c9e627 to none

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comment:5

Is it normal that build/pkgs/configure/checksums.ini and build/pkgs/configure/package-version.txt were modified in this ticket?

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comment:6

hmm, no. But this is the last commit that Volker has closed before the release.

@Kerl13
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Kerl13 commented Sep 30, 2022

comment:7

These files are not modified on u/MartinPepin/dancing_links_docs_formatting at least.

By the way, what's the usual practice regarding merged branches? Can I remove the branch on trac or is there a policy to keep them?

vbraun pushed a commit that referenced this issue Mar 26, 2023
    
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### 📚 Description

Made small edits to the PR template, making it concise and tidy overall.

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URL: #35141
Reported by: Kwankyu Lee
Reviewer(s): Kwankyu Lee, Tobias Diez
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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Partial fix for pycodestyle E221, done using autopep8.

E221 multiple spaces before operator

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URL: #35355
Reported by: Frédéric Chapoton
Reviewer(s): Matthias Köppe
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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The update #35184 broke the docs
upload. Hopefully this is fixed with this PR.

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URL: #35356
Reported by: Tobias Diez
Reviewer(s): Dima Pasechnik, Kwankyu Lee
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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Follow-up from #35322.
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URL: #35366
Reported by: Matthias Köppe
Reviewer(s): Gonzalo Tornaría
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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### 📚 Description

This is a follow-up on:
- #35110

As preparation for #35322, which is changing more packages to implicit
namespace packages, we remove `.all` imports from these packages
throughout the Sage library.

This is part of:
- #29705

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- Depends on #35418
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URL: #35372
Reported by: Matthias Köppe
Reviewer(s): Gonzalo Tornaría
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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### 📚 Description
openblas 0.3.22 is broken, see:
- #35371
- scipy/scipy#18208
- OpenMathLib/OpenBLAS#3976

We reject it.

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URL: #35377
Reported by: Matthias Köppe
Reviewer(s): John H. Palmieri
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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`matrix_modn_dense_float.pyx` had single backticks in one of the
docstrings which was causing it to render as LaTeX text, while it was
intended to be monospace formatted. The missing backticks are added to
fix this.

Fixes #35363

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URL: #35382
Reported by: Karan Handa
Reviewer(s): Matthias Köppe
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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The source tarballs made by `make dist` contain a git repository.
We update the remotes.
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As discussed in https://groups.google.com/g/sage-devel/c/TsHnvmkdrR8
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URL: #35384
Reported by: Matthias Köppe
Reviewer(s): John H. Palmieri
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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Adding the command `sage --tox -e cython-lint`.
See https://pypi.org/project/cython-lint/

There are many failures, so it is not run by default.
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URL: #35385
Reported by: Matthias Köppe
Reviewer(s): Frédéric Chapoton
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
In sage/src/sage/libs/eclib/mwrank.pyx
Line 843 should read 'minumum' instead of 'minimum'.

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URL: #35390
Reported by: yukibl
Reviewer(s): Matthias Köppe
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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URL: #35405
Reported by: Marc Mezzarobba
Reviewer(s): Matthias Köppe
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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### 📚 Description

fix all pep8 E303 warning in the folders whose name starts with the
letter m

purely done with autopep8:

```
$ autopep8 -i --select=E303 src/sage/m*/*.py
$ autopep8 -i --select=E303 src/sage/m*/*/*.py
```

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URL: #35409
Reported by: Frédéric Chapoton
Reviewer(s): David Coudert
vbraun pushed a commit that referenced this issue Apr 6, 2023
    
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### 📚 Description

Follow-up from #35056. Currently no
codecov reports are displayed because the doc deployment workflow is
failing and codecov by default only adds its checks if all other checks
are passing. We change this setting so that codecov checks are always
added, regardless of other failing tests.

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URL: #35412
Reported by: Tobias Diez
Reviewer(s): Kwankyu Lee, Matthias Köppe, Tobias Diez
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
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This PR is focused on addition of classes for Chow ring ideal and Chow
ring of matroids.
[Check relevant issue.](sagemath#37987)
The ideals classes consist of the Chow ring ideal and Augmented Chow
ring ideal, with Gröbner basis for each of them.

The Chow ring class is an initial version.
@tscrim


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URL: sagemath#38281
Reported by: 25shriya
Reviewer(s): 25shriya, Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
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A few small quality of life improvements to the conda setup.
Notably the environment files under `src` are now moved to the root, as
the old env files there were non-functional and only confused users.
Relately, removed the outdated,not working and untested instructions to
use conda solely to provide the system packages for sage-the-distro.

A few other improvements along the way:
- Make conda in devcontainer working again by forcing mamba v1 (v2 was
released a few days ago and breaks a few things related to the lock
files)
- Force usage of conda-forge everywhere (mixing of channels is no longer
supported)


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URL: sagemath#38728
Reported by: Tobias Diez
Reviewer(s): Dima Pasechnik, Kwankyu Lee, Tobias Diez, Vincent Macri
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
…r graphs

    
This PR implements a non recursive version of method `gomory_hu_tree`
for graphs. This fixes the max recursion depth error reported in
https://ask.sagemath.org/question/79577/graphs-gomory-hu-tree-memory-
blow-up-and-max-recursion-depth/. The memory consumption is seriously
reduced.

Without this PR:
```py
sage: def test(g):
....:     from datetime import datetime
....:     import psutil
....:     start_time = datetime.now()
....:     process = psutil.Process(os.getpid())
....:     mem = process.memory_info()[0] / float(2 ** 20)
....:     print("Mem usage at start:", mem, "MiB")
....:     try:
....:         print("Vertices found:", g.order(), "and edges:",
g.size())
....:         T = g.gomory_hu_tree(algorithm="FF")
....:     except Exception as error:
....:         print("Error detected:", error)
....:     finally:
....:         end_time = datetime.now()
....:         print("Runtime =", end_time - start_time)
....:         mem = process.memory_info()[0] / float(2 ** 20)
....:         print("Mem usage at end:", mem, "MiB")
....:
sage: test(graphs.SierpinskiGasketGraph(5))
Mem usage at start: 241.0234375 MiB
Vertices found: 123 and edges: 243
Runtime = 0:00:00.243477
Mem usage at end: 252.1171875 MiB
sage: test(graphs.SierpinskiGasketGraph(6))
Mem usage at start: 252.1171875 MiB
Vertices found: 366 and edges: 729
Runtime = 0:00:02.050924
Mem usage at end: 324.30078125 MiB
sage: test(graphs.SierpinskiGasketGraph(7))
Mem usage at start: 324.30078125 MiB
Vertices found: 1095 and edges: 2187
Runtime = 0:00:21.207451
Mem usage at end: 968.97265625 MiB
sage: test(graphs.SierpinskiGasketGraph(8))
Mem usage at start: 950.25390625 MiB
Vertices found: 3282 and edges: 6561
Error detected: maximum recursion depth exceeded
Runtime = 0:04:36.154550
Mem usage at end: 6767.39453125 MiB
```

With this PR
```py
sage: test(graphs.SierpinskiGasketGraph(5))
Mem usage at start: 246.0859375 MiB
Vertices found: 123 and edges: 243
Runtime = 0:00:00.219925
Mem usage at end: 246.7109375 MiB
sage: test(graphs.SierpinskiGasketGraph(6))
Mem usage at start: 247.0234375 MiB
Vertices found: 366 and edges: 729
Runtime = 0:00:01.900761
Mem usage at end: 248.2734375 MiB
sage: test(graphs.SierpinskiGasketGraph(7))
Mem usage at start: 248.5859375 MiB
Vertices found: 1095 and edges: 2187
Runtime = 0:00:18.535145
Mem usage at end: 252.4921875 MiB
sage: test(graphs.SierpinskiGasketGraph(8))
Mem usage at start: 253.1171875 MiB
Vertices found: 3282 and edges: 6561
Runtime = 0:02:57.325506
Mem usage at end: 265.15234375 MiB
sage: test(graphs.SierpinskiGasketGraph(9))
Mem usage at start: 263.625 MiB
Vertices found: 9843 and edges: 19683
Runtime = 0:29:03.321870
Mem usage at end: 296.8359375 MiB
sage: test(graphs.SierpinskiGasketGraph(10))
Mem usage at start: 303.11328125 MiB
Vertices found: 29526 and edges: 59049
Runtime = 5:01:45.355463
Mem usage at end: 399.3984375 MiB
```




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URL: sagemath#38791
Reported by: David Coudert
Reviewer(s): Dima Pasechnik
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
necessary for GAP 4.13.1

This was forgotten in sagemath#38804


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URL: sagemath#38875
Reported by: Dima Pasechnik
Reviewer(s): Marc Culler
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
…nishes

    
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as discussed in https://groups.google.com/g/sage-devel/c/YbaVbz_y_xY

Along the way, a bug in the doc-build workflow is fixed.

Test: https://doc-pr-38895--
sagemath.netlify.app/html/en/jupyter_execute/latex.py (should not exist)

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URL: sagemath#38895
Reported by: Kwankyu Lee
Reviewer(s): Martin Rubey
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
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A bit of a minor cleanup of the meson build files. Extracted from
sagemath#38872.

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URL: sagemath#38910
Reported by: Tobias Diez
Reviewer(s): Michael Orlitzky
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
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With some compilers you get
```
src/sage/rings/integer.cp311-
win_amd64.pyd.p/src/sage/rings/integer.pyx.c(62495): error C2124: divide
or mod by zero
```
This is fixed by using `float(+- inf)`.

Extracted from sagemath#38872

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URL: sagemath#38911
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
Fixes
```
../src/sage/symbolic/ginac/archive.cpp(584): error C2039: 'mem_fun_ref':
is not a member of 'std'
C:\Program Files\Microsoft Visual
Studio\2022\Community\VC\Tools\MSVC\14.41.34120\include\sstream(19):
note: see declaration of 'std'
../src/sage/symbolic/ginac/archive.cpp(584): error C3861: 'mem_fun_ref':
identifier not found
../src/sage/symbolic/ginac/archive.cpp(584): error C2672: 'for_each': no
matching overloaded function found
```
with  C++17.

Extracted from sagemath#38872.

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URL: sagemath#38912
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
`os.uname` is not available on Windows, so we replace it by
`platform.system`. Also replace the `UNAME` variable in `sage.env` which
is was only used in one place.

Extracted from sagemath#38872

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URL: sagemath#38914
Reported by: Tobias Diez
Reviewer(s): Kwankyu Lee
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
Fixes
```
C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14
.41.34120\include\xkeycheck.h(341): warning C4005: 'register': macro
redefinition
../src/sage/symbolic/ginac/constant.cpp(23): note: see previous
definition of 'register'
C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14
.41.34120\include\xkeycheck.h(343): fatal error C1189: #error:  The C++
Standard Library forbids macroizing the keyword "register". Enable
warning C4005 to find the forbidden define.
```

Not sure why `register` was declared there in the first place.

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example, "Fixes sagemath#12345". -->



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URL: sagemath#38915
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
Fixes
```
../src/sage/symbolic/ginac/upoly-ginac.cpp(219): error C2440:
'<function-style-cast>': cannot convert from 'size_t' to
'GiNaC::numeric'
../src/sage/symbolic/ginac/upoly-ginac.cpp(219): note:
'GiNaC::numeric::numeric': ambiguous call to overloaded function
```
by static casting.

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URL: sagemath#38916
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
Fix sagemath#38900.

The data structure of the graph was not stored. We add it to the stored
data.

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URL: sagemath#38919
Reported by: David Coudert
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
    
Recent versions of Xcode have deprecated `-ld_classic`, so (a) we stop
using it, (b) we filter warnings about it when doctesting, and (c) we
filter some other warnings related to ld in Xcode.

Without these changes, when building with the latest Xcode, I get many
doctest failures because of the new warning
```
ld: warning: -ld_classic is deprecated and will be removed in a future
release
```

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URL: sagemath#38931
Reported by: John H. Palmieri
Reviewer(s): Marc Culler
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 8, 2024
`make sagelib-clean` should not remove any `meson.build` files, but now
it does, the one in
`src/sage/ext/interpreters/`.
As  reported here: https://groups.google.com/g/sage-
release/c/HHbr1W7vDoM/m/qLYBuIcpCAAJ
This PR fixes this.

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URL: sagemath#38934
Reported by: Dima Pasechnik
Reviewer(s): Dima Pasechnik, Gonzalo Tornaría, Tobias Diez
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
<!-- ^ Please provide a concise and informative title. -->
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to calculate 1 + 2". -->
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A few small quality of life improvements to the conda setup.
Notably the environment files under `src` are now moved to the root, as
the old env files there were non-functional and only confused users.
Relately, removed the outdated,not working and untested instructions to
use conda solely to provide the system packages for sage-the-distro.

A few other improvements along the way:
- Make conda in devcontainer working again by forcing mamba v1 (v2 was
released a few days ago and breaks a few things related to the lock
files)
- Force usage of conda-forge everywhere (mixing of channels is no longer
supported)


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URL: sagemath#38728
Reported by: Tobias Diez
Reviewer(s): Dima Pasechnik, Kwankyu Lee, Tobias Diez, Vincent Macri
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
<!-- ^ Please provide a concise and informative title. -->
The objective of this issue is to introduce a new class
`MatchingCoveredGraph` through a new file
`src/sage/graphs/matching_covered_graph.py` in order to address the
decompositions, generation methods and related concepts in the theory of
Matching Covered Graphs.

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<!-- v Describe your changes below in detail. -->
This PR introduces a new class pertaining to matching, namely
`MatchingCoveredGraph` and aims to list out all functions fundamentally
related to matching covered graph in the file
`src/sage/graphs/matching_covered_graph.py`. The initialization and some
basic class methods in this context, that shall be addressed through
this PR, are described below:

- [x] `__init__()`: Create a matching covered graph, that is a connected
nontrivial graph wherein each edge participates in some perfect
matching.
- [x] `__repr__()`: Return a short string representation of the matching
covered graph.
- [x] `_subgraph_by_adding()`: Return the matching covered subgraph
containing the given vertices and edges.
- [x] `_upgrade_from_graph()`: Upgrade the given graph to a matching
covered graph if eligible.
- [x] `add_edge()`: Add an edge from vertex ``u`` to vertex ``v``.
- [x] `add_edges()`: Add edges from an iterable container.
- [x] `add_vertex()`: Add a vertex to the (matching covered) graph.
- [x] `add_vertices()`: Add vertices to the (matching covered) graph
from an iterable container of vertices.
- [x] `allow_loops()`: Change whether loops are allowed in (matching
covered) graphs.
- [x] `allows_loops()`: Return whether loops are permitted in (matching
covered) graph.
- [x] `delete_vertex()`: Delete a vertex, removing all incident edges.0
- [x] `delete_vertices()`: Delete specified vertices form ``self``.
- [x] `get_matching()`: Return a :class:`~EdgesView` of
``self._matching`` (a perfect matching of the (matching covered) graph
computed at the initialization).
- [x] `has_perfect_matching()`: Return whether the graph has a perfect
matching.
- [x] `update_matching()`: Update the perfect matching captured in
``self._matching``.

<!-- v Why is this change required? What problem does it solve? -->
This PR shall establish a foundation to address the methods related to
matching covered graphs.
<!-- v If this PR resolves an open issue, please link to it here. For
example, "Fixes sagemath#12345". -->
Fixes sagemath#38216.
Note that this issue fixes a small part of the above-mentioned issue.


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Nothing as of now (up to my knowledge).
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cc: @dcoudert.
    
URL: sagemath#38742
Reported by: Janmenjaya Panda
Reviewer(s): David Coudert, Janmenjaya Panda
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
…r graphs

    
This PR implements a non recursive version of method `gomory_hu_tree`
for graphs. This fixes the max recursion depth error reported in
https://ask.sagemath.org/question/79577/graphs-gomory-hu-tree-memory-
blow-up-and-max-recursion-depth/. The memory consumption is seriously
reduced.

Without this PR:
```py
sage: def test(g):
....:     from datetime import datetime
....:     import psutil
....:     start_time = datetime.now()
....:     process = psutil.Process(os.getpid())
....:     mem = process.memory_info()[0] / float(2 ** 20)
....:     print("Mem usage at start:", mem, "MiB")
....:     try:
....:         print("Vertices found:", g.order(), "and edges:",
g.size())
....:         T = g.gomory_hu_tree(algorithm="FF")
....:     except Exception as error:
....:         print("Error detected:", error)
....:     finally:
....:         end_time = datetime.now()
....:         print("Runtime =", end_time - start_time)
....:         mem = process.memory_info()[0] / float(2 ** 20)
....:         print("Mem usage at end:", mem, "MiB")
....:
sage: test(graphs.SierpinskiGasketGraph(5))
Mem usage at start: 241.0234375 MiB
Vertices found: 123 and edges: 243
Runtime = 0:00:00.243477
Mem usage at end: 252.1171875 MiB
sage: test(graphs.SierpinskiGasketGraph(6))
Mem usage at start: 252.1171875 MiB
Vertices found: 366 and edges: 729
Runtime = 0:00:02.050924
Mem usage at end: 324.30078125 MiB
sage: test(graphs.SierpinskiGasketGraph(7))
Mem usage at start: 324.30078125 MiB
Vertices found: 1095 and edges: 2187
Runtime = 0:00:21.207451
Mem usage at end: 968.97265625 MiB
sage: test(graphs.SierpinskiGasketGraph(8))
Mem usage at start: 950.25390625 MiB
Vertices found: 3282 and edges: 6561
Error detected: maximum recursion depth exceeded
Runtime = 0:04:36.154550
Mem usage at end: 6767.39453125 MiB
```

With this PR
```py
sage: test(graphs.SierpinskiGasketGraph(5))
Mem usage at start: 246.0859375 MiB
Vertices found: 123 and edges: 243
Runtime = 0:00:00.219925
Mem usage at end: 246.7109375 MiB
sage: test(graphs.SierpinskiGasketGraph(6))
Mem usage at start: 247.0234375 MiB
Vertices found: 366 and edges: 729
Runtime = 0:00:01.900761
Mem usage at end: 248.2734375 MiB
sage: test(graphs.SierpinskiGasketGraph(7))
Mem usage at start: 248.5859375 MiB
Vertices found: 1095 and edges: 2187
Runtime = 0:00:18.535145
Mem usage at end: 252.4921875 MiB
sage: test(graphs.SierpinskiGasketGraph(8))
Mem usage at start: 253.1171875 MiB
Vertices found: 3282 and edges: 6561
Runtime = 0:02:57.325506
Mem usage at end: 265.15234375 MiB
sage: test(graphs.SierpinskiGasketGraph(9))
Mem usage at start: 263.625 MiB
Vertices found: 9843 and edges: 19683
Runtime = 0:29:03.321870
Mem usage at end: 296.8359375 MiB
sage: test(graphs.SierpinskiGasketGraph(10))
Mem usage at start: 303.11328125 MiB
Vertices found: 29526 and edges: 59049
Runtime = 5:01:45.355463
Mem usage at end: 399.3984375 MiB
```




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URL: sagemath#38791
Reported by: David Coudert
Reviewer(s): Dima Pasechnik
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
necessary for GAP 4.13.1

This was forgotten in sagemath#38804


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URL: sagemath#38875
Reported by: Dima Pasechnik
Reviewer(s): Marc Culler
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
…nishes

    
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as discussed in https://groups.google.com/g/sage-devel/c/YbaVbz_y_xY

Along the way, a bug in the doc-build workflow is fixed.

Test: https://doc-pr-38895--
sagemath.netlify.app/html/en/jupyter_execute/latex.py (should not exist)

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URL: sagemath#38895
Reported by: Kwankyu Lee
Reviewer(s): Martin Rubey
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
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A bit of a minor cleanup of the meson build files. Extracted from
sagemath#38872.

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URL: sagemath#38910
Reported by: Tobias Diez
Reviewer(s): Michael Orlitzky
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
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With some compilers you get
```
src/sage/rings/integer.cp311-
win_amd64.pyd.p/src/sage/rings/integer.pyx.c(62495): error C2124: divide
or mod by zero
```
This is fixed by using `float(+- inf)`.

Extracted from sagemath#38872

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URL: sagemath#38911
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
Fixes
```
../src/sage/symbolic/ginac/archive.cpp(584): error C2039: 'mem_fun_ref':
is not a member of 'std'
C:\Program Files\Microsoft Visual
Studio\2022\Community\VC\Tools\MSVC\14.41.34120\include\sstream(19):
note: see declaration of 'std'
../src/sage/symbolic/ginac/archive.cpp(584): error C3861: 'mem_fun_ref':
identifier not found
../src/sage/symbolic/ginac/archive.cpp(584): error C2672: 'for_each': no
matching overloaded function found
```
with  C++17.

Extracted from sagemath#38872.

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URL: sagemath#38912
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
`os.uname` is not available on Windows, so we replace it by
`platform.system`. Also replace the `UNAME` variable in `sage.env` which
is was only used in one place.

Extracted from sagemath#38872

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URL: sagemath#38914
Reported by: Tobias Diez
Reviewer(s): Kwankyu Lee
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
Fixes
```
C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14
.41.34120\include\xkeycheck.h(341): warning C4005: 'register': macro
redefinition
../src/sage/symbolic/ginac/constant.cpp(23): note: see previous
definition of 'register'
C:\Program Files\Microsoft Visual Studio\2022\Community\VC\Tools\MSVC\14
.41.34120\include\xkeycheck.h(343): fatal error C1189: #error:  The C++
Standard Library forbids macroizing the keyword "register". Enable
warning C4005 to find the forbidden define.
```

Not sure why `register` was declared there in the first place.

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URL: sagemath#38915
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
Fixes
```
../src/sage/symbolic/ginac/upoly-ginac.cpp(219): error C2440:
'<function-style-cast>': cannot convert from 'size_t' to
'GiNaC::numeric'
../src/sage/symbolic/ginac/upoly-ginac.cpp(219): note:
'GiNaC::numeric::numeric': ambiguous call to overloaded function
```
by static casting.

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URL: sagemath#38916
Reported by: Tobias Diez
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
Fixes sagemath#38900.

The data structure of the graph was not stored. We add it to the stored
data.

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URL: sagemath#38919
Reported by: David Coudert
Reviewer(s): Travis Scrimshaw
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
Recent versions of Xcode have deprecated `-ld_classic`, so (a) we stop
using it, (b) we filter warnings about it when doctesting, and (c) we
filter some other warnings related to ld in Xcode.

Without these changes, when building with the latest Xcode, I get many
doctest failures because of the new warning
```
ld: warning: -ld_classic is deprecated and will be removed in a future
release
```

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URL: sagemath#38931
Reported by: John H. Palmieri
Reviewer(s): Marc Culler
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
    
`make sagelib-clean` should not remove any `meson.build` files, but now
it does, the one in
`src/sage/ext/interpreters/`.
As  reported here: https://groups.google.com/g/sage-
release/c/HHbr1W7vDoM/m/qLYBuIcpCAAJ
This PR fixes this.

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URL: sagemath#38934
Reported by: Dima Pasechnik
Reviewer(s): Dima Pasechnik, Gonzalo Tornaría, Tobias Diez
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 9, 2024
These tarballs are now hosted at a release of sagemath/sage-package as
"assets", as `user.ox.ac.uk/~coml0531` is to be removed

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URL: sagemath#38948
Reported by: Dima Pasechnik
Reviewer(s): Julian Rüth
vbraun pushed a commit to vbraun/sage that referenced this issue Nov 10, 2024
Pkgconf 2.3.0 changes the PKG_PROG_PKG_CONFIG macro to error out instead
of marking it as not found. Arguably this is the correct default for
most but not for us, since we support building on macos where Apple, in
their infinite wisdom, decided not to ship their dev tools with it.

See also: https://github.com/pkgconf/pkgconf/blob/master/NEWS

    dnl PKG_PROG_PKG_CONFIG([MIN-VERSION], [ACTION-IF-NOT-FOUND])
    dnl ---------------------------------------------------------
    dnl Since: 0.16
    dnl
    dnl Search for the pkg-config tool and set the PKG_CONFIG variable
to
    dnl first found in the path. Checks that the version of pkg-config
found
    dnl is at least MIN-VERSION. If MIN-VERSION is not specified, 0.9.0
is
    dnl used since that's the first version where most current features
of
    dnl pkg-config existed.
    dnl
    dnl If pkg-config is not found or older than specified, it will
result
    dnl in an empty PKG_CONFIG variable. To avoid widespread issues with
    dnl scripts not checking it, ACTION-IF-NOT-FOUND defaults to
aborting.
    dnl You can specify [PKG_CONFIG=false] as an action instead, which
would
    dnl result in pkg-config tests failing, but no bogus error messages.

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URL: sagemath#38954
Reported by: Volker Braun
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