sage: import 10.2.beta3 patches

[nevivurn]

Description of changes

• Import upstream patches:

  • doctest fix for python >= 3.11, src/bin/sage-env: set PYDEVD_DISABLE_FILE_VALIDATION=1 sagemath/sage#36218
  • fix for ecl >= 23.9.9, support for ecl 23.9.9 sagemath/sage#36235

• Failing Hydra logs, relevant lines:

  [311/552] gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -I/nix/store/jh2dj172jmmlw74kw4bsqa5ycf1blv4v-libxcrypt-4.4.36/include -fPIC -Isage/libs -I/nix/store/kiw2pplx7iadra2zy0c204bhngrjw8xg-gmp-with-cxx-6.3.0-dev/include -I/nix/store/jjxwn04kkwqy4nmdzp4np2pdjq21vhzv-ecl-23.9.9/include -I./sage/cpython -I/nix/store/0ikyy1lm97f36psav3pn2z1anglx678n-python3.11-cysignals-1.11.2/lib/python3.11/site-packages/cysignals -I/build/sage-src-10.0/pkgs/sagemath-standard -I/nix/store/2z836nvlwm17ih2sy1d1l165jihdr2ha-python3.11-numpy-1.26.1/lib/python3.11/site-packages/numpy/core/include -I/nix/store/5k91mg4qjylxbfvrv748smfh51ppjq0g-python3-3.11.6/include/python3.11 -Ibuild/cythonized -I/nix/store/5k91mg4qjylxbfvrv748smfh51ppjq0g-python3-3.11.6/include/python3.11 -c build/cythonized/sage/libs/ecl.c -o build/temp.linux-x86_64-cpython-311/build/cythonized/sage/libs/ecl.o -fno-strict-aliasing -DCYTHON_CLINE_IN_TRACEBACK=1 -Dlinux
  In file included from build/cythonized/sage/libs/ecl.c:3373:
  build/cythonized/sage/libs/eclsig.h: In function ‘ecl_bignum_from_mpz’:
  build/cythonized/sage/libs/eclsig.h:48:45: error: ‘struct ecl_bignum’ has no member named ‘big_num’
     48 | #define ecl_mpz_from_bignum(obj) ((obj)->big.big_num)
        |                                             ^
  build/cythonized/sage/libs/eclsig.h:53:13: note: in expansion of macro ‘ecl_mpz_from_bignum’
     53 |     mpz_set(ecl_mpz_from_bignum(z), num);
        |             ^~~~~~~~~~~~~~~~~~~
  build/cythonized/sage/libs/ecl.c: In function ‘__pyx_f_4sage_4libs_3ecl_ecl_to_python’:
  build/cythonized/sage/libs/eclsig.h:48:45: error: ‘struct ecl_bignum’ has no member named ‘big_num’
     48 | #define ecl_mpz_from_bignum(obj) ((obj)->big.big_num)
        |                                             ^
  build/cythonized/sage/libs/ecl.c:7415:199: note: in expansion of macro ‘ecl_mpz_from_bignum’
   7415 |     ((struct __pyx_vtabstruct_4sage_5rings_7integer_Integer *)__pyx_v_N->__pyx_base.__pyx_base.__pyx_base.__pyx_base.__pyx_base.__pyx_base.__pyx_base.__pyx_base.__pyx_vtab)->set_from_mpz(__pyx_v_N, ecl_mpz_from_bignum(__pyx_v_o));
        |                                                                                                                                                                                                       ^~~~~~~~~~~~~~~~~~~
  

Result of nixpkgs-review run on x86_64-linux 1

4 packages built:

• cantor
• labplot
• sage
• sageWithDoc

Things done

• Built on platform(s)
  • x86_64-linux
  • aarch64-linux
  • x86_64-darwin
  • aarch64-darwin
• For non-Linux: Is sandboxing enabled in nix.conf? (See Nix manual)
  • sandbox = relaxed
  • sandbox = true
• Tested, as applicable:
  • NixOS test(s) (look inside nixos/tests)
  • and/or package tests
  • or, for functions and "core" functionality, tests in lib/tests or pkgs/test
  • made sure NixOS tests are linked to the relevant packages
• Tested compilation of all packages that depend on this change using nix-shell -p nixpkgs-review --run "nixpkgs-review rev HEAD". Note: all changes have to be committed, also see nixpkgs-review usage
• Tested basic functionality of all binary files (usually in ./result/bin/)
• 24.05 Release Notes (or backporting 23.05 and 23.11 Release notes)
  • (Package updates) Added a release notes entry if the change is major or breaking
  • (Module updates) Added a release notes entry if the change is significant
  • (Module addition) Added a release notes entry if adding a new NixOS module
• Fits CONTRIBUTING.md.

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[nevivurn]

The x86_64-linux failure is due to a flaky test, known upstream (sagemath/sage#34772). Unsure what to do about it.

[collares]

Great, thank you very much! No need to worry about the plot.py failure, I've seen it before too.