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[bug#56729] [RFC PATCH v2 00/29] Add sagemath.
From: |
vicvbcun |
Subject: |
[bug#56729] [RFC PATCH v2 00/29] Add sagemath. |
Date: |
Mon, 8 Aug 2022 17:45:35 +0200 |
Hello guix!
This is a second try, hopefully this time without silly errors.
The packaging of sagemath is for now structured as follows:
- `sagemath-just-build' builds everything using the minimal set of
dependecies to avoid rebuilding where possible. As runtime
dependencies are missing, this is useless on its own.
- `sagemath-with-dependencies' adds all remaining dependencies as
propagated-inputs. This should work, if we set a few additional
environment variables.
- `sagemath-tests' simply runs the tests.
If I interpret the output correctly, these are the tests that are still
failing:
> sage/calculus/calculus.py # 6 doctests failed
> sage/categories/primer.py # 1 doctest failed
> sage/doctest/control.py # 3 doctests failed
> sage/doctest/sources.py # 1 doctest failed
> sage/doctest/test.py # 1 doctest failed
> sage/env.py # 4 doctests failed
> sage/doctest/forker.py # 1 doctest failed
> sage/functions/exp_integral.py # 1 doctest failed
> sage/interfaces/gap_workspace.py # 2 doctests failed
> sage/interfaces/maxima_abstract.py # 2 doctests failed
> sage/interfaces/maxima_lib.py # 2 doctests failed
> sage/lfunctions/sympow.py # 10 doctests failed
> sage/libs/eclib/interface.py # 7 doctests failed
> sage/misc/package_dir.py # 1 doctest failed
> sage/modular/abvar/abvar.py # 1 doctest failed
> sage/modular/hecke/submodule.py # 1 doctest failed
> sage/plot/plot3d/tachyon.py # 2 doctests failed
> sage/repl/display/jsmol_iframe.py # 11 doctests failed
> sage/repl/display/formatter.py # 4 doctests failed
> sage/repl/ipython_kernel/install.py # 1 doctest failed
> sage/repl/ipython_tests.py # 2 doctests failed
> sage/repl/rich_output/backend_ipython.py # 1 doctest failed
> sage/repl/rich_output/output_graphics.py # 25 doctests failed
> sage/repl/rich_output/output_graphics3d.py # 34 doctests failed
> sage/repl/rich_output/output_video.py # 14 doctests failed
> sage/repl/rich_output/backend_doctest.py # 17 doctests failed
> sage/schemes/elliptic_curves/ell_rational_field.py # 14 doctests failed
> sage/symbolic/integration/integral.py # 1 doctest failed
> sage/symbolic/relation.py # 1 doctest failed
> sage/tests/gap_packages.py # 1 doctest failed
> sage/tests/cmdline.py # 14 doctests failed
Some of these seem harmless, others seem more concerning (including
segmentation faults), some due to still missing dependencies.
Some Notes:
- We need to set some environment variables, so that sage can find all
dependencies (see `sagemath-tests'). I suppose we could wrap the
`sage' command, but this would of course add them as dependencies.
- For the `sagemath-data-*' packages, I couldn't find explicit Licenses.
In Sage's COPYING.txt it just says "None (database)" for license.
- How should we handle test failures? Given errors such as the ones
below, it seems delusional to expect every test to succeed.
> Failed example:
> solve_ineq_fourier([x+y<9,x-y>4],[y,x])
> Expected:
> [[y < min(x - 4, -x + 9)]]
> Got:
> [[y < min(-x + 9, x - 4)]]
> Failed example:
> FDS.basename
> Expected:
> 'sage.rings.integer'
> Got:
> '/gnu/store/.../lib/python3.9/site-packages/sage/rings/integer.pyx'
- `python-cython' is build-time dependency but may be needed at runtime.
This could cause issues when cross-compiling, right? I think its path
is only in the wrappers in bin/*.
vicvbcun (29):
gnu: Remove ecl-16.
gnu: edge-addition-planarity-suite: Update to 3.0.2.0.
gnu: gap: Update to 4.11.1.
gnu: cliquer: Update to 1.22.
gnu: lcalc: Update to 2.0.5.
gnu: ntl: Update to 11.5.1.
gnu: eclib: Update to 20220621.
gnu: lrcalc: Update to 2.1.
gnu: maxima: Update to 5.46.0.
gnu: python-sympy: Update to 1.10.1.
gnu: cddlib: Update to 0.94m.
gnu: Add python-memory-allocator.
gnu: Add python-pplpy.
gnu: Add primecount.
gnu: Add python-primecountpy.
gnu: Add python-lrcalc.
gnu: Add palp.
gnu: Add gfan.
gnu: Add flintqs.
gnu: Add tachyon.
gnu: Add sagemath-data-conway-polynomials.
gnu: Add sagemath-data-elliptic-curves.
gnu: Add sagemath-data-combinatorial-designs.
gnu: Add sagemath-data-graphs.
gnu: Add sagemath-data-poytopes-db.
gnu: Add pari-galdata.
gnu: Add sagemath-just-build.
gnu: Add sagemath-with-dependencies.
gnu: Add sagemath-tests.
gnu/local.mk | 9 +-
gnu/packages/algebra.scm | 203 +++--
gnu/packages/graph.scm | 4 +-
gnu/packages/maths.scm | 31 +-
.../ecl-16-format-directive-limit.patch | 83 --
.../ecl-16-ignore-stderr-write-error.patch | 17 -
gnu/packages/patches/ecl-16-libffi.patch | 16 -
.../patches/lcalc-default-parameters-1.patch | 26 -
.../patches/lcalc-default-parameters-2.patch | 58 --
gnu/packages/patches/lcalc-lcommon-h.patch | 13 -
.../patches/lcalc-using-namespace-std.patch | 43 -
gnu/packages/patches/lrcalc-includes.patch | 92 ---
gnu/packages/patches/tachyon-make-arch.patch | 13 +
gnu/packages/python-xyz.scm | 4 +-
gnu/packages/sagemath.scm | 780 ++++++++++++++++--
15 files changed, 833 insertions(+), 559 deletions(-)
delete mode 100644 gnu/packages/patches/ecl-16-format-directive-limit.patch
delete mode 100644 gnu/packages/patches/ecl-16-ignore-stderr-write-error.patch
delete mode 100644 gnu/packages/patches/ecl-16-libffi.patch
delete mode 100644 gnu/packages/patches/lcalc-default-parameters-1.patch
delete mode 100644 gnu/packages/patches/lcalc-default-parameters-2.patch
delete mode 100644 gnu/packages/patches/lcalc-lcommon-h.patch
delete mode 100644 gnu/packages/patches/lcalc-using-namespace-std.patch
delete mode 100644 gnu/packages/patches/lrcalc-includes.patch
create mode 100644 gnu/packages/patches/tachyon-make-arch.patch
base-commit: f6904c0b19c2fcca41bbf1400c738bd833fec9a8
--
2.37.0
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