sage: fix numpy and scipy integration

[timokau]

Motivation for this change

The ofBorg build will still fail because #46016 hasn't gone through staging yet.

Things done

• Tested using sandboxing (nix.useSandbox on NixOS, or option sandbox in nix.conf on non-NixOS)
• Built on platform(s)
  • NixOS
  • macOS
  • other Linux distributions
• Tested via one or more NixOS test(s) if existing and applicable for the change (look inside nixos/tests)
• Tested compilation of all pkgs that depend on this change using nix-shell -p nox --run "nox-review wip"
• Tested execution of all binary files (usually in ./result/bin/)
• Determined the impact on package closure size (by running nix path-info -S before and after)
• Fits CONTRIBUTING.md.

---

[GrahamcOfBorg]

No attempt on aarch64-linux (full log)

The following builds were skipped because they don't evaluate on aarch64-linux: sage

Partial log (click to expand)

a) For `nixos-rebuild` you can set
  { nixpkgs.config.allowUnfree = true; }
in configuration.nix to override this.

b) For `nix-env`, `nix-build`, `nix-shell` or any other Nix command you can add
  { allowUnfree = true; }
to ~/.config/nixpkgs/config.nix.

[GrahamcOfBorg]

No attempt on x86_64-darwin (full log)

The following builds were skipped because they don't evaluate on x86_64-darwin: sage

Partial log (click to expand)

a) For `nixos-rebuild` you can set
  { nixpkgs.config.allowUnsupportedSystem = true; }
in configuration.nix to override this.

b) For `nix-env`, `nix-build`, `nix-shell` or any other Nix command you can add
  { allowUnsupportedSystem = true; }
to ~/.config/nixpkgs/config.nix.

[GrahamcOfBorg]

Failure on x86_64-linux (full log)

Attempted: sage

Partial log (click to expand)

  File "/nix/store/dzmmc92gy7a30pyxqa8fj0mhak6yg3m5-python-2.7.15-env/lib/python2.7/site-packages/sage/matrix/__init__.py", line 2, in <module>
    import sage.matrix.args
  File "sage/matrix/args.pyx", line 25, in init sage.matrix.args
  File "/nix/store/dzmmc92gy7a30pyxqa8fj0mhak6yg3m5-python-2.7.15-env/lib/python2.7/site-packages/sage/matrix/matrix_space.py", line 46, in <module>
    from . import matrix_modn_sparse
  File "sage/matrix/matrix_integer_dense.pxd", line 10, in init sage.matrix.matrix_modn_sparse
ImportError: /nix/store/dzmmc92gy7a30pyxqa8fj0mhak6yg3m5-python-2.7.15-env/lib/python2.7/site-packages/sage/matrix/matrix_integer_dense.so: undefined symbol: cblas_daxpy
builder for '/nix/store/qhmwqri2gjx8mkd641jvc8i7s88maa64-sage-8.3.drv' failed with exit code 1
cannot build derivation '/nix/store/qk2x0s4c1n8fgdz74mzj1bwqk61k3dzn-sage-wrapper-8.3.drv': 1 dependencies couldn't be built
error: build of '/nix/store/qk2x0s4c1n8fgdz74mzj1bwqk61k3dzn-sage-wrapper-8.3.drv' failed