rebase patches for cython 0.29.33 #2
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mkoeppe
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Mar 18, 2023
* Improve camera positioning for threejs * Changes to sagedoc, stopgap and superseded; one mass replacement * Another mass replacement * Another mass replacement * Another replacement * Another replacement * Remove comment numbers * Fix a couple of strays * trac ticket -> github issue * Change checksums back, fix meta-ticket * Another mass replacement * Another mass replacement * Another mass replacement * Manual fixes * Small replacement * Small replacement * Fix typo * Add github role to tox * add explicit formulas to documentation of WeierstrassIsomorphism * lift documentation from .__init__() to class and tweak * add doctest for sagemath#20847 * add .torsion_basis() method to EllipticCurve_finite_field * Revert "Remove comment numbers" This reverts commit 27cdf3e. * Revert changes to git_trac.rst * Switch :github: to :issue: * Switch from sage-prod to sage in attachment links * Change trac_number to issue_number * cross linked matrix method * Add construction of strongly regular digraph * A few manual fixes * Another automatic change * Undo a bunch of changes in the doc directory * Another fix * Try to fix sphinx problem * Move comment tag inside * allowing iterables as input * Fix code style * generalized fix * converting iterables * added is_supergreedy() function * implemented diff algo, for borderline cases * correcting function for disjoint set of points * correcting function * documentation changes * minor chagnges * fixing_failing_tests * minor documentation correction * Update linear_extensions.py * corrected TeX maths in docstrings * further fixes to supergreedy docstring * Added Reference * adding reference * minor updates * correcting documentation errors * correct a wrong change to :trac: * remove spurrious blank line * another spurrious line removed * compute matrix kernels modulo composites * fix doctests * docstring style tweak * adding doctests * correct the import location (duh...) * adding colored permutation doctests * doctests fixes * replaced "Combining Caron"+c with one unicode character * Updated SageMath version to 10.0.beta1 --------- Co-authored-by: Kwankyu Lee <ekwankyu@gmail.com> Co-authored-by: David Roe <roed.math@gmail.com> Co-authored-by: Lorenz Panny <lorenz@yx7.cc> Co-authored-by: Marc Mezzarobba <marc@mezzarobba.net> Co-authored-by: Tobias Diez <code@tobiasdiez.com> Co-authored-by: Sandstorm831 <gargrohan138@gmail.com> Co-authored-by: Rohan Garg <76916164+Sandstorm831@users.noreply.github.com> Co-authored-by: Dima Pasechnik <dima@pasechnik.info> Co-authored-by: Release Manager <release@sagemath.org>
mkoeppe
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Mar 26, 2023
### 📚 Description Trac branch `u/gh-collares/gap-gc` from sagemath#34701, now migrated to GitHub. Currently based atop sagemath#35093; will rebase once that is merged. The rest of the description below is copied from sagemath#34701: A refactor in sagemath#27946 introduced "unprotected" (not surrounded by `GAP_Enter`/`GAP_Leave`) `GAP_ValueGlobalVariable` calls. I believe this might be a GC hazard, because after updating to GAP 4.12.1 I started seeing aarch64 crashes on NixOS infrastructure such as: ``` #0 0x0000fffff79740e8 in wait4 () #1 0x0000fffff5dc6b78 in print_enhanced_backtrace () #2 0x0000fffff5dc8190 in sigdie () #3 0x0000fffff5dcb1c0 in cysigs_signal_handler () #4 0x0000fffff7ffb7cc in __kernel_rt_sigreturn () #5 0x0000ffff99a0bf28 in ConvString () #6 0x0000000000000000 in ?? () #7 0x0000000000000000 in ?? () #8 0x0000000000000000 in ?? () #9 0x0000ffff99989930 in Pr () #10 0x0000ffff9998aa18 in CloseOutput () #11 0x0000ffff99884828 in capture_stdout () at /build/sage- src-9.7/pkgs/sagemath-standard/sage/libs/gap/element.pyx:154 ... ``` I also see cases where `capture_stdout` throws errors such as `sage.libs.gap.util.GAPError: Error, Length: <list> must be a list (not the integer 255)` and then crashes. Both types of errors are fixed by this ticket. Note that I am nesting `GAP_Enter`/`GAP_Leave` calls because I didn't remove the preexisting calls inside `capture_stdout`. That's because I feared removing the innermost calls might create a new footgun (and I believe nested `GAP_Enter`/`GAP_Leave` calls are explicitly supported), but removing them should cause no problem. Removing them might even be preferable for performance reasons, I don't know. Fixes sagemath#34701 ### 📝 Checklist <!-- Put an `x` in all the boxes that apply. --> <!-- If your change requires a documentation PR, please link it appropriately --> <!-- If you're unsure about any of these, don't hesitate to ask. We're here to help! --> - [x] I have made sure that the title is self-explanatory and the description concisely explains the PR. - [x] I have linked an issue or discussion. - [ ] I have created tests covering the changes. - [ ] I have updated the documentation accordingly. ### ⌛ Dependencies <!-- List all open pull requests that this PR logically depends on --> <!-- - #xyz: short description why this is a dependency - #abc: ... --> - sagemath#35093: GAP 4.12.2 upgrade, which touches the same function and should land first. URL: sagemath#35114 Reported by: Mauricio Collares Reviewer(s): Dima Pasechnik
mkoeppe
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Jun 4, 2023
Testing sync_labels (sagemath#35172)
mkoeppe
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Jul 1, 2023
Make sure sagemath#26968 is not unfixed after sagemath#35707.
mkoeppe
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Jul 30, 2023
Update reference [HKL2021]: Appeared in 2022
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