Remove Python3 and some dependencies by cxzhong · Pull Request #41120 · sagemath/sage

cxzhong · 2025-10-31T07:48:23Z

Delete python3 and sqlite packages. as @dimpase suggested, we do not provide python3 package.
fix the ncurses compilation problem. It is caused by The C++ part is not maintained and it is unused for mostly all cases. So we directly do not compile the C++ part.
fix the readline package can not be built in gcc15. remove the outdate patch.
building sage in high parallel threads may result error. When the sagelib started building, the maxima is still building. It will cause sagelib can not proper find the location of maxima. Just add maxima as a dependency of sagelib.
fix the CI, because we remove python package.

📝 Checklist

The title is concise and informative.
The description explains in detail what this PR is about.
I have linked a relevant issue or discussion.
I have created tests covering the changes.
I have updated the documentation and checked the documentation preview.

⌛ Dependencies

…es, openssl, python3, readline, sqlite, and xz

github-actions · 2025-10-31T09:00:11Z

Documentation preview for this PR (built with commit e3cd73e; changes) is ready! 🎉
This preview will update shortly after each push to this PR.

Add explicit linking to ncurses for readline on Linux.

orlitzky · 2026-02-02T17:16:25Z

I am officially retiring from supporting the things in build/pkgs, sorry :)

The changes look OK to me, only the --no-as-needed is a bit suspicious because --as-needed is default on Gentoo and we don't have any workarounds for it in readline.

dimpase · 2026-02-02T18:20:41Z

the best way here is to remove Python package from the distro. It has about 1 user, who easily can do without it, too.

cxzhong · 2026-02-03T07:51:41Z

the best way here is to remove Python package from the distro. It has about 1 user, who easily can do without it, too.

It will break minimal linux CI. for minimal building, it needs python package. How to deal with this problem. and we can not test the building of such basic packages like readline ncurses and so on

… improve directory management

Since Sage now requires system Python 3.12+, remove: - ubuntu-jammy (Python 3.10) - debian-bullseye (Python 3.9) - debian-bookworm (Python 3.11) - centos-stream-9 (Python 3.9) Keep only: - ubuntu-noble (Python 3.12) - fedora-40 (Python 3.12) - fedora-41 (Python 3.12/3.13) - opensuse-tumbleweed (rolling, has Python 3.12+)

Since Python 3.12 removed distutils from the standard library, setuptools is now required for the configure-time extension compilation tests. - debian.txt: Add python3-setuptools and python3-venv - opensuse.txt: Add python3-setuptools - fedora.txt: Add python3-setuptools

The configure-time extension compilation tests need Python.h header. - debian.txt: Add python3-dev - opensuse.txt: Add python3-devel - fedora.txt: Add python3-devel

CentOS Stream 10 has Python 3.12+ available, so it's compatible with the new system Python requirement. - docker.yml: Add centos-stream-10 to tox_system_factors - tox.ini: Add centos-stream-10 with BASE_TAG=stream10 CentOS uses SYSTEM=fedora, so fedora.txt prereqs apply which already have python3-devel and python3-setuptools.

cxzhong · 2026-03-23T07:21:04Z

This seems a race condition

  [pari_galdata-20080411.p0] error installing, exit status 1. Log file:
  [pari_galdata-20080411.p0]   Attempting to download package pari_galdata-20080411.tar.bz2 from mirrors
  [pari_galdata-20080411.p0]   https://github.com/sagemath/sage/releases/download/10.9/pari_galdata-20080411.tar.bz2
  [pari_galdata-20080411.p0]   [xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx]
  [pari_galdata-20080411.p0]   ERROR [transfer|run:137]: HTTP Error 404: Not Found
  [pari_galdata-20080411.p0]   https://github.com/sagemath/sage/releases/download/10.8/pari_galdata-20080411.tar.bz2
  [pari_galdata-20080411.p0]   [......................................................................]
  [pari_galdata-20080411.p0]   Setting up build directory /sage/local/var/tmp/sage/build/pari_galdata-20080411.p0
  [pari_galdata-20080411.p0]   No patch files found in ../patches
  [pari_galdata-20080411.p0]   Host system: Linux buildkitsandbox 6.14.0-1017-azure #17~24.04.1-Ubuntu SMP Mon Dec  1 20:10:50 UTC 2025 x86_64 x86_64 x86_64 GNU/Linux
  [pari_galdata-20080411.p0]   C compiler: gcc, Using built-in specs., COLLECT_GCC=gcc, COLLECT_LTO_WRAPPER=/usr/libexec/gcc/x86_64-linux-gnu/13/lto-wrapper, OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa, OFFLOAD_TARGET_DEFAULT=1, Target: x86_64-linux-gnu, Configured with: ../src/configure -v --with-pkgversion='Ubuntu 13.3.0-6ubuntu2~24.04.1' --with-bugurl=file:///usr/share/doc/gcc-13/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2 --prefix=/usr --with-gcc-major-version-only --program-suffix=-13 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/gcc-13-EldibY/gcc-13-13.3.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/gcc-13-EldibY/gcc-13-13.3.0/debian/tmp-gcn/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2, Thread model: posix, Supported LTO compression algorithms: zlib zstd, gcc version 13.3.0 (Ubuntu 13.3.0-6ubuntu2~24.04.1)
  [pari_galdata-20080411.p0]   No stamp file for package 'pari_galdata' in /sage/local/var/lib/sage/installed
  [pari_galdata-20080411.p0]   No spkg-legacy-uninstall script; nothing to do
  [pari_galdata-20080411.p0]   ::group::.log
  [pari_galdata-20080411.p0]   [spkg-install] src/galdata -> /sage/local/var/tmp/sage/build/pari_galdata-20080411.p0/inst/sage/local/share/pari
  [pari_galdata-20080411.p0]   ::endgroup::
  [pari_galdata-20080411.p0]   Moving package files from temporary location /sage/local/var/tmp/sage/build/pari_galdata-20080411.p0/inst to /sage/local
  [pari_galdata-20080411.p0]   cp: cannot create directory '/sage/local/./share/pari': File exists
  [pari_galdata-20080411.p0]   ************************************************************************
  [pari_galdata-20080411.p0]   Error moving files for pari_galdata-20080411.p0.
  [pari_galdata-20080411.p0]   ************************************************************************
  [pari_galdata-20080411.p0]   Please email sage-devel (http://groups.google.com/group/sage-devel)
  [pari_galdata-20080411.p0]   explaining the problem and including the log files
  [pari_galdata-20080411.p0]     /sage/logs/pkgs/pari_galdata-20080411.p0.log
  [pari_galdata-20080411.p0]   and
  [pari_galdata-20080411.p0]     /sage/config.log
  [pari_galdata-20080411.p0]   Describe your computer, operating system, etc.
  [pari_galdata-20080411.p0]   ************************************************************************
make[2]: *** [Makefile:3308: pari_galdata-SAGE_LOCAL-no-deps] Error 1
make[1]: *** [Makefile:3308: /sage/local/var/lib/sage/installed/pari_galdata-20080411.p0] Error 2
make --no-print-directory lrcalc-SAGE_LOCAL-no-deps
  [pari_seadata_small-20090618.p0] successfully installed.

dimpase

can you make this a separate PR?

cxzhong · 2026-03-23T07:42:20Z

can you make this a separate PR?

Yes. I will push force. Please help me relabel this positive

cxzhong · 2026-03-23T08:00:59Z

link to #41875

cxzhong · 2026-03-24T07:26:21Z

@dimpase This also should be relabelled as positive

cxzhong · 2026-03-25T05:58:17Z

@dimpase @tobiasdiez the primecount package in Ubuntu 26.04 is also problematic. The ubuntu maths team does not fix it until now. We may wait it apply 8.3 version? https://code.launchpad.net/ubuntu/+source/primecount

cxzhong · 2026-03-25T07:34:16Z

Or we just remove primecount debian directly? I do not know if someone can contact the ubuntu math team to fix this

dimpase · 2026-03-25T18:06:00Z

Or we just remove primecount debian directly? I do not know if someone can contact the ubuntu math team to fix this

can we fix the CI to not use system primecount on Ubuntu?

dimpase · 2026-03-25T18:19:55Z

@dimpase @tobiasdiez the primecount package in Ubuntu 26.04 is also problematic. The ubuntu maths team does not fix it until now. We may wait it apply 8.3 version? https://code.launchpad.net/ubuntu/+source/primecount

you should add to your report the primecount upstream acknowledgement that it is a bug, and a link to the fixed version.

cxzhong · 2026-03-25T18:37:02Z

@dimpase @tobiasdiez the primecount package in Ubuntu 26.04 is also problematic. The ubuntu maths team does not fix it until now. We may wait it apply 8.3 version? https://code.launchpad.net/ubuntu/+source/primecount

you should add to your report the primecount upstream acknowledgement that it is a bug, and a link to the fixed version.

I have reported this to debian. but Ubuntu team does not release primecount 8.2, also use the problematic version. I think I will remove primecount from spkg/primecount/distro/debian

dimpase · 2026-03-25T22:27:49Z

@dimpase @tobiasdiez the primecount package in Ubuntu 26.04 is also problematic. The ubuntu maths team does not fix it until now. We may wait it apply 8.3 version? https://code.launchpad.net/ubuntu/+source/primecount

you should add to your report the primecount upstream acknowledgement that it is a bug, and a link to the fixed version.

I have reported this to debian. but Ubuntu team does not release primecount 8.2, also use the problematic version. I think I will remove primecount from spkg/primecount/distro/debian

I am talking about
https://bugs.launchpad.net/ubuntu/+source/primecount/+bug/2141868

cxzhong · 2026-03-29T08:59:13Z

I am talking about https://bugs.launchpad.net/ubuntu/+source/primecount/+bug/2141868

Yes, we have to wait. The Ubuntu team deal with this so slow. or we can check the version from pc file

Update package versions and checksums for libffi, libpng, mpfr, ncurs…

0a030c3

…es, openssl, python3, readline, sqlite, and xz

cxzhong marked this pull request as ready for review October 31, 2025 08:39

github-actions bot added the s: needs review label Oct 31, 2025

cxzhong requested a review from dimpase October 31, 2025 08:40

cxzhong added 3 commits October 31, 2025 23:49

Fix: Add 'maxima' to the build-time dependencies of the Sage library

59f2c46

Configure readline to link ncurses explicitly

1ab99a3

Add explicit linking to ncurses for readline on Linux.

Merge branch 'develop' into Bump-Python

2bf74eb

cxzhong closed this Nov 24, 2025

cxzhong deleted the Bump-Python branch November 24, 2025 12:39

github-actions bot removed the s: needs review label Nov 24, 2025

cxzhong restored the Bump-Python branch February 2, 2026 14:18

cxzhong reopened this Feb 2, 2026

Merge branch 'develop' into Bump-Python

c31e5f0

github-actions bot added the s: needs review label Feb 2, 2026

cxzhong requested a review from orlitzky February 2, 2026 14:24

cxzhong added 2 commits February 3, 2026 16:52

Merge branch 'pr-41576' into Bump-Python

ba00dfb

Delete python packages

85c1305

cxzhong changed the title ~~Upgrade Python3 and dependencies regularly~~ Delete Python3 and sqlite Feb 3, 2026

cxzhong added 8 commits February 3, 2026 17:20

Refactor distutils checks to use conftest.dir for temporary files and…

c5571c8

… improve directory management

Add python3-dev/python3-devel to distro prereqs

3db197c

The configure-time extension compilation tests need Python.h header. - debian.txt: Add python3-dev - opensuse.txt: Add python3-devel - fedora.txt: Add python3-devel

Update Fedora versions from 40/41 to 42/43 in CI

387846e

Install setuptools for Python 3.13 on macOS CI

e7c7405

Bump openssl to 3.5.5 and xz to 5.8.2

b0f4ff7

Merge branch 'develop' into Bump-Python

6cab648

github-actions bot added s: needs review and removed s: positive review labels Mar 23, 2026

dimpase reviewed Mar 23, 2026

View reviewed changes

cxzhong force-pushed the Bump-Python branch from 5a65438 to 6cab648 Compare March 23, 2026 07:43

cxzhong requested a review from dimpase March 23, 2026 07:57

dimpase added s: positive review and removed s: needs review labels Mar 25, 2026

cxzhong mentioned this pull request Mar 29, 2026

Upgrade to Maxima 5.49 and ecl 26.3.27 #41879

Open

5 tasks

cxzhong mentioned this pull request Apr 5, 2026

Upgrade pypi packages to the lastest version #41926

Merged

5 tasks

resolve conflict

e3cd73e

github-actions bot added s: needs review and removed s: positive review labels Apr 5, 2026

dimpase added s: positive review and removed s: needs review labels Apr 5, 2026

dimpase approved these changes Apr 5, 2026

View reviewed changes

vbraun merged commit c5f8fc7 into sagemath:develop Apr 8, 2026
30 of 35 checks passed

github-actions bot removed the s: positive review label Apr 8, 2026

cxzhong deleted the Bump-Python branch April 9, 2026 04:48

Uh oh!

Conversation

cxzhong commented Oct 31, 2025 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

📝 Checklist

⌛ Dependencies

Uh oh!

github-actions bot commented Oct 31, 2025 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

orlitzky commented Feb 2, 2026

Uh oh!

dimpase commented Feb 2, 2026

Uh oh!

cxzhong commented Feb 3, 2026

Uh oh!

cxzhong commented Mar 23, 2026

Uh oh!

dimpase left a comment

Choose a reason for hiding this comment

Uh oh!

cxzhong commented Mar 23, 2026 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

cxzhong commented Mar 23, 2026

Uh oh!

cxzhong commented Mar 24, 2026

Uh oh!

cxzhong commented Mar 25, 2026

Uh oh!

cxzhong commented Mar 25, 2026 • edited Loading Uh oh! There was an error while loading. Please reload this page.

Uh oh!

Uh oh!

dimpase commented Mar 25, 2026

Uh oh!

dimpase commented Mar 25, 2026

Uh oh!

cxzhong commented Mar 25, 2026

Uh oh!

dimpase commented Mar 25, 2026

Uh oh!

cxzhong commented Mar 29, 2026

Uh oh!

Uh oh!

Reviewers

Assignees

Labels

Projects

Milestone

Development

Uh oh!

6 participants

cxzhong commented Oct 31, 2025 •

edited

Loading

github-actions bot commented Oct 31, 2025 •

edited

Loading

cxzhong commented Mar 23, 2026 •

edited

Loading

cxzhong commented Mar 25, 2026 •

edited

Loading