2018-04-24 22:53:36 +01:00
|
|
|
{ stdenv
|
|
|
|
, fetchFromGitHub
|
|
|
|
, fetchpatch
|
2019-02-26 11:45:54 +00:00
|
|
|
, runtimeShell
|
2018-04-24 22:53:36 +01:00
|
|
|
}:
|
2018-11-12 22:28:29 +00:00
|
|
|
|
|
|
|
# This file is responsible for fetching the sage source and adding necessary patches.
|
|
|
|
# It does not actually build anything, it just copies the patched sources to $out.
|
|
|
|
# This is done because multiple derivations rely on these sources and they should
|
|
|
|
# all get the same sources with the same patches applied.
|
|
|
|
|
2018-04-24 22:53:36 +01:00
|
|
|
stdenv.mkDerivation rec {
|
2019-04-18 21:54:25 +01:00
|
|
|
version = "8.8.beta2";
|
2019-01-27 10:28:39 +00:00
|
|
|
pname = "sage-src";
|
2018-04-24 22:53:36 +01:00
|
|
|
|
|
|
|
src = fetchFromGitHub {
|
|
|
|
owner = "sagemath";
|
|
|
|
repo = "sage";
|
|
|
|
rev = version;
|
2019-04-18 21:54:25 +01:00
|
|
|
sha256 = "1avrxhhcd1hy4hm9sgma430hvxg36f10kr9p3himj6kl4m9pyflv";
|
2018-04-24 22:53:36 +01:00
|
|
|
};
|
|
|
|
|
2018-11-12 22:28:29 +00:00
|
|
|
# Patches needed because of particularities of nix or the way this is packaged.
|
|
|
|
# The goal is to upstream all of them and get rid of this list.
|
2018-04-24 22:53:36 +01:00
|
|
|
nixPatches = [
|
|
|
|
# https://trac.sagemath.org/ticket/25358
|
|
|
|
(fetchpatch {
|
|
|
|
name = "safe-directory-test-without-patch.patch";
|
|
|
|
url = "https://git.sagemath.org/sage.git/patch?id2=8bdc326ba57d1bb9664f63cf165a9e9920cc1afc&id=dc673c17555efca611f68398d5013b66e9825463";
|
|
|
|
sha256 = "1hhannz7xzprijakn2w2d0rhd5zv2zikik9p51i87bas3nc658f7";
|
|
|
|
})
|
|
|
|
|
2018-07-08 21:51:24 +01:00
|
|
|
# Unfortunately inclusion in upstream sage was rejected. Instead the bug was
|
|
|
|
# fixed in python, but of course not backported to 2.7. So we'll probably
|
|
|
|
# have to keep this around until 2.7 is deprecated.
|
2018-04-24 22:53:36 +01:00
|
|
|
# https://trac.sagemath.org/ticket/25316
|
2018-07-08 21:51:24 +01:00
|
|
|
# https://github.com/python/cpython/pull/7476
|
2018-04-24 22:53:36 +01:00
|
|
|
./patches/python-5755-hotpatch.patch
|
2018-10-21 13:16:06 +01:00
|
|
|
|
2018-10-21 16:55:53 +01:00
|
|
|
# Make sure py2/py3 tests are only run when their expected context (all "sage"
|
|
|
|
# tests) are also run. That is necessary to test dochtml individually. See
|
|
|
|
# https://trac.sagemath.org/ticket/26110 for an upstream discussion.
|
|
|
|
./patches/Only-test-py2-py3-optional-tests-when-all-of-sage-is.patch
|
2019-01-18 22:02:03 +00:00
|
|
|
|
|
|
|
# Fixes a potential race condition which can lead to transient doctest failures.
|
|
|
|
./patches/fix-ecl-race.patch
|
2019-03-10 21:42:54 +00:00
|
|
|
|
2019-01-27 10:28:39 +00:00
|
|
|
# Part of the build system. Should become unnecessary with sage 8.8.
|
|
|
|
# Upstream discussion here: https://trac.sagemath.org/ticket/27124#comment:33
|
|
|
|
./patches/do-not-test-package-manifests.patch
|
|
|
|
|
|
|
|
# Not necessary since library location is set explicitly
|
|
|
|
# https://trac.sagemath.org/ticket/27660#ticket
|
|
|
|
./patches/do-not-test-find-library.patch
|
|
|
|
|
|
|
|
# https://trac.sagemath.org/ticket/27697#ticket
|
|
|
|
(fetchpatch {
|
|
|
|
name = "pplpy-doc-location-configurable.patch";
|
|
|
|
url = "https://git.sagemath.org/sage.git/patch/?h=c4d966e7cb0c7b87c55d52dc6f46518433a2a0a2";
|
|
|
|
sha256 = "0pqbbsx8mriwny422s9mp3z5d095cnam32sm62q4mxk8g8jb9vm9";
|
|
|
|
})
|
2019-06-18 10:50:41 +01:00
|
|
|
|
|
|
|
# https://trac.sagemath.org/ticket/28007
|
|
|
|
./patches/threejs-offline.patch
|
2019-04-18 21:54:25 +01:00
|
|
|
|
|
|
|
# Parallelize docubuild using subprocesses, fixing an isolation issue. See
|
|
|
|
# https://groups.google.com/forum/#!topic/sage-packaging/YGOm8tkADrE
|
|
|
|
./patches/sphinx-docbuild-subprocesses.patch
|
2018-04-24 22:53:36 +01:00
|
|
|
];
|
|
|
|
|
2019-03-17 14:36:01 +00:00
|
|
|
# Since sage unfortunately does not release bugfix releases, packagers must
|
|
|
|
# fix those bugs themselves. This is for critical bugfixes, where "critical"
|
|
|
|
# == "causes (transient) doctest failures / somebody complained".
|
2019-04-18 21:54:25 +01:00
|
|
|
bugfixPatches = [ ];
|
2019-03-17 14:36:01 +00:00
|
|
|
|
2018-11-12 22:28:29 +00:00
|
|
|
# Patches needed because of package updates. We could just pin the versions of
|
|
|
|
# dependencies, but that would lead to rebuilds, confusion and the burdons of
|
|
|
|
# maintaining multiple versions of dependencies. Instead we try to make sage
|
|
|
|
# compatible with never dependency versions when possible. All these changes
|
|
|
|
# should come from or be proposed to upstream. This list will probably never
|
|
|
|
# be empty since dependencies update all the time.
|
2018-10-22 21:32:23 +01:00
|
|
|
packageUpgradePatches = let
|
2018-11-12 22:28:29 +00:00
|
|
|
# Fetch a diff between `base` and `rev` on sage's git server.
|
|
|
|
# Used to fetch trac tickets by setting the `base` to the last release and the
|
|
|
|
# `rev` to the last commit of the ticket.
|
2019-01-16 23:28:37 +00:00
|
|
|
fetchSageDiff = { base, rev, name ? "sage-diff-${base}-${rev}.patch", ...}@args: (
|
2018-10-22 21:32:23 +01:00
|
|
|
fetchpatch ({
|
2019-01-16 23:28:37 +00:00
|
|
|
inherit name;
|
2019-02-14 20:48:03 +00:00
|
|
|
url = "https://git.sagemath.org/sage.git/patch?id2=${base}&id=${rev}";
|
2018-10-22 21:32:23 +01:00
|
|
|
# We don't care about sage's own build system (which builds all its dependencies).
|
|
|
|
# Exclude build system changes to avoid conflicts.
|
2019-02-14 20:48:03 +00:00
|
|
|
excludes = [ "build/*" ];
|
2018-10-28 12:28:22 +00:00
|
|
|
} // builtins.removeAttrs args [ "rev" "base" ])
|
2018-10-22 21:32:23 +01:00
|
|
|
);
|
|
|
|
in [
|
2018-04-24 22:53:36 +01:00
|
|
|
# New glpk version has new warnings, filter those out until upstream sage has found a solution
|
2018-11-27 17:26:16 +00:00
|
|
|
# Should be fixed with glpk > 4.65.
|
2018-04-24 22:53:36 +01:00
|
|
|
# https://trac.sagemath.org/ticket/24824
|
2018-11-12 21:58:51 +00:00
|
|
|
./patches/pari-stackwarn.patch # not actually necessary since the pari upgrade, but necessary for the glpk patch to apply
|
2018-04-24 22:53:36 +01:00
|
|
|
(fetchpatch {
|
|
|
|
url = "https://salsa.debian.org/science-team/sagemath/raw/58bbba93a807ca2933ca317501d093a1bb4b84db/debian/patches/dt-version-glpk-4.65-ignore-warnings.patch";
|
|
|
|
sha256 = "0b9293v73wb4x13wv5zwyjgclc01zn16msccfzzi6znswklgvddp";
|
|
|
|
stripLen = 1;
|
|
|
|
})
|
|
|
|
|
2019-04-14 16:52:03 +01:00
|
|
|
# https://trac.sagemath.org/ticket/27653
|
|
|
|
(fetchpatch {
|
|
|
|
name = "sympy-1.4.patch";
|
|
|
|
url = "https://git.sagemath.org/sage.git/patch/?h=3277ba76d0ba7174608a31a0c6623e9210c63e3d";
|
|
|
|
sha256 = "09avaanwmdgqv14mmllbgw9z2scf4lc0y0kzdhlriiq8ss9j8iir";
|
|
|
|
})
|
2019-04-06 17:01:02 +01:00
|
|
|
|
2019-04-28 12:16:38 +01:00
|
|
|
# https://trac.sagemath.org/ticket/27738
|
|
|
|
(fetchpatch {
|
|
|
|
name = "R-3.6.0.patch";
|
|
|
|
url = "https://git.sagemath.org/sage.git/patch/?h=8b7dbd0805d02d0e8674a272e161ceb24a637966";
|
|
|
|
sha256 = "1c81f13z1w62s06yvp43gz6vkp8mxcs289n6l4gj9xj10slimzff";
|
|
|
|
})
|
2019-05-11 15:09:07 +01:00
|
|
|
|
|
|
|
# https://trac.sagemath.org/ticket/26932
|
|
|
|
(fetchSageDiff {
|
|
|
|
name = "givaro-4.1.0_fflas-ffpack-2.4.0_linbox-1.6.0.patch";
|
|
|
|
base = "8.8.beta4";
|
|
|
|
rev = "c11d9cfa23ff9f77681a8f12742f68143eed4504";
|
|
|
|
sha256 = "0xzra7mbgqvahk9v45bjwir2mqz73hrhhy314jq5nxrb35ysdxyi";
|
|
|
|
})
|
2019-06-20 11:17:33 +01:00
|
|
|
|
|
|
|
# https://trac.sagemath.org/ticket/26718
|
|
|
|
(fetchpatch {
|
|
|
|
name = "threejs-r100.patch";
|
|
|
|
url = "https://git.sagemath.org/sage.git/patch/?h=86c5bb000259e6de5d7c60afc608a4b0d010b690";
|
|
|
|
sha256 = "0sgqqd4df2bxsq19b6kfy7dvgyxprlpg7f3xx7g3fs8ij937m352";
|
|
|
|
})
|
2018-04-24 22:53:36 +01:00
|
|
|
];
|
|
|
|
|
2019-03-17 14:36:01 +00:00
|
|
|
patches = nixPatches ++ bugfixPatches ++ packageUpgradePatches;
|
2018-04-24 22:53:36 +01:00
|
|
|
|
|
|
|
postPatch = ''
|
|
|
|
# make sure shebangs etc are fixed, but sage-python23 still works
|
|
|
|
find . -type f -exec sed \
|
|
|
|
-e 's/sage-python23/python/g' \
|
|
|
|
-i {} \;
|
|
|
|
|
2019-02-26 11:45:54 +00:00
|
|
|
echo '#!${runtimeShell}
|
2018-04-24 22:53:36 +01:00
|
|
|
python "$@"' > build/bin/sage-python23
|
|
|
|
|
2019-01-27 10:28:39 +00:00
|
|
|
# Make sure sage can at least be imported without setting any environment
|
|
|
|
# variables. It won't be close to feature complete though.
|
|
|
|
sed -i \
|
|
|
|
"s|var('SAGE_LOCAL',.*|var('SAGE_LOCAL', '$out/src')|" \
|
|
|
|
src/sage/env.py
|
|
|
|
|
2018-04-24 22:53:36 +01:00
|
|
|
# Do not use sage-env-config (generated by ./configure).
|
|
|
|
# Instead variables are set manually.
|
|
|
|
echo '# do nothing' > src/bin/sage-env-config
|
|
|
|
'';
|
|
|
|
|
|
|
|
configurePhase = "# do nothing";
|
|
|
|
|
|
|
|
buildPhase = "# do nothing";
|
|
|
|
|
|
|
|
installPhase = ''
|
|
|
|
cp -r . "$out"
|
|
|
|
'';
|
|
|
|
}
|