mirror of
https://github.com/NixOS/nixpkgs.git
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230 lines
9.6 KiB
Nix
230 lines
9.6 KiB
Nix
{ stdenv
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, fetchFromGitHub
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, fetchpatch
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, runtimeShell
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}:
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# This file is responsible for fetching the sage source and adding necessary patches.
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# It does not actually build anything, it just copies the patched sources to $out.
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# This is done because multiple derivations rely on these sources and they should
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# all get the same sources with the same patches applied.
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let
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# Fetch a diff between `base` and `rev` on sage's git server.
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# Used to fetch trac tickets by setting the `base` to the last release and the
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# `rev` to the last commit of the ticket.
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#
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# We don't use sage's own build system (which builds all its
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# dependencies), so we exclude changes to "build/" from patches by
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# default to avoid conflicts.
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fetchSageDiff = { base, name, rev, sha256, squashed ? false, excludes ? [ "build/*" ]
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, ...}@args: (
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fetchpatch ({
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inherit name sha256 excludes;
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# There are three places to get changes from:
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#
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# 1) From Sage's Trac. Contains all release tags (like "9.4") and all developer
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# branches (wip patches from tickets), but exports each commit as a separate
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# patch, so merge commits can lead to conflicts. Used if squashed == false.
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#
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# The above is the preferred option. To use it, find a Trac ticket and pass the
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# "Commit" field from the ticket as "rev", choosing "base" as an appropriate
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# release tag, i.e. a tag that doesn't cause the patch to include a lot of
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# unrelated changes. If there is no such tag (due to nonlinear history, for
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# example), there are two other options, listed below.
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#
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# 2) From GitHub's sagemath/sage repo. This lets us use a GH feature that allows
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# us to choose between a .patch file, with one patch per commit, or a .diff file,
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# which squashes all commits into a single diff. This is used if squashed ==
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# true. This repo has all release tags. However, it has no developer branches, so
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# this option can't be used if a change wasn't yet shipped in a (possibly beta)
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# release.
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#
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# 3) From GitHub's sagemath/sagetrac-mirror repo. Mirrors all developer branches,
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# but has no release tags. The only use case not covered by 1 or 2 is when we need
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# to apply a patch from an open ticket that contains merge commits.
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#
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# Item 3 could cover all use cases if the sagemath/sagetrack-mirror repo had
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# release tags, but it requires a sha instead of a release number in "base", which
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# is inconvenient.
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urls = if squashed
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then [
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"https://github.com/sagemath/sage/compare/${base}...${rev}.diff"
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"https://github.com/sagemath/sagetrac-mirror/compare/${base}...${rev}.diff"
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]
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else [ "https://git.sagemath.org/sage.git/patch?id2=${base}&id=${rev}" ];
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} // builtins.removeAttrs args [ "rev" "base" "sha256" "squashed" "excludes" ])
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);
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in
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stdenv.mkDerivation rec {
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version = "9.5";
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pname = "sage-src";
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src = fetchFromGitHub {
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owner = "sagemath";
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repo = "sage";
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rev = version;
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sha256 = "sha256-uOsLpsGpcIGs8Xr82X82MElnTB2E908gytyNJ8WVD5w=";
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};
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# Patches needed because of particularities of nix or the way this is packaged.
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# The goal is to upstream all of them and get rid of this list.
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nixPatches = [
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# Since https://trac.sagemath.org/ticket/32174, some external features are
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# marked as "safe" and get auto-detected, in which case the corresponding
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# optional tests are executed. We disable auto-detection of safe features if
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# we are doctesting with an "--optional" argument which does not include
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# "sage", because tests from autodetected features expect context provided
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# by running basic sage tests. This is necessary to test sagemath_doc_html
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# separately. See https://trac.sagemath.org/ticket/26110 for a related
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# upstream discussion (from the time when Sage still had optional py2/py3
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# tags).
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./patches/Only-test-external-software-when-all-of-sage-is.patch
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# Fixes a potential race condition which can lead to transient doctest failures.
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./patches/fix-ecl-race.patch
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# Not necessary since library location is set explicitly
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# https://trac.sagemath.org/ticket/27660#ticket
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./patches/do-not-test-find-library.patch
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# Parallelize docubuild using subprocesses, fixing an isolation issue. See
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# https://groups.google.com/forum/#!topic/sage-packaging/YGOm8tkADrE
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./patches/sphinx-docbuild-subprocesses.patch
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];
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# Since sage unfortunately does not release bugfix releases, packagers must
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# fix those bugs themselves. This is for critical bugfixes, where "critical"
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# == "causes (transient) doctest failures / somebody complained".
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bugfixPatches = [
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# To help debug the transient error in
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# https://trac.sagemath.org/ticket/23087 when it next occurs.
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./patches/configurationpy-error-verbose.patch
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];
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# Patches needed because of package updates. We could just pin the versions of
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# dependencies, but that would lead to rebuilds, confusion and the burdons of
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# maintaining multiple versions of dependencies. Instead we try to make sage
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# compatible with never dependency versions when possible. All these changes
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# should come from or be proposed to upstream. This list will probably never
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# be empty since dependencies update all the time.
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packageUpgradePatches = [
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# After updating smypow to (https://trac.sagemath.org/ticket/3360) we can
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# now set the cache dir to be within the .sage directory. This is not
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# strictly necessary, but keeps us from littering in the user's HOME.
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./patches/sympow-cache.patch
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# Upstream will wait until Sage 9.7 to upgrade to linbox 1.7 because it
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# does not support gcc 6. We can upgrade earlier.
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# https://trac.sagemath.org/ticket/32959
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./patches/linbox-1.7-upgrade.patch
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# https://trac.sagemath.org/ticket/33170
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(fetchSageDiff {
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base = "9.6.beta5";
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name = "ipython-8.1-update.patch";
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rev = "4d2b53f1541375861310af3a7f7109c1c2ed475d";
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sha256 = "sha256-ELda/VBzsQH7NdFas69fQ35QPUoJCeLx/gxT1j7qGR8=";
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})
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# https://trac.sagemath.org/ticket/32968
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(fetchSageDiff {
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base = "9.5";
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name = "sphinx-4.3-update.patch";
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rev = "fc84f82f52b6f05f512cb359ec7c100f93cf8841";
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sha256 = "sha256-bBbfdcnw/9LUOlY8rHJRbFJEdMXK4shosqTNaobTS1Q=";
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})
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# https://trac.sagemath.org/ticket/33189
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(fetchSageDiff {
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base = "9.5";
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name = "arb-2.22-update.patch";
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rev = "53532ddd4e2dc92469c1590ebf0c40f8f69bf579";
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sha256 = "sha256-6SoSBvIlqvNwZV3jTB6uPdUtaWIOeNmddi2poK/WvGs=";
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})
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# TODO: This will not be necessary when Sphinx 4.4.1 is released,
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# since some warnings introduced in 4.4.0 will be disabled by then
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# (https://github.com/sphinx-doc/sphinx/pull/10126).
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# https://trac.sagemath.org/ticket/33272
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(fetchSageDiff {
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base = "9.5";
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name = "sphinx-4.4-warnings.patch";
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rev = "97d7958bed441cf2ccc714d88f83d3a8426bc085";
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sha256 = "sha256-y1STE0oxswnijGCsBw8eHWWqpmT1XMznIfA0vvX9pFA=";
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})
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# adapted from https://trac.sagemath.org/ticket/23712#comment:22
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./patches/tachyon-renamed-focallength.patch
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# https://trac.sagemath.org/ticket/33336
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(fetchSageDiff {
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base = "9.6.beta2";
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name = "scipy-1.8-update.patch";
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rev = "9c8235e44ffb509efa8a3ca6cdb55154e2b5066d";
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sha256 = "sha256-bfc4ljNOxVnhlmxIuNbjbKl4vJXYq2tlF3Z8bbC8PWw=";
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})
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# https://trac.sagemath.org/ticket/33495
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(fetchSageDiff {
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base = "9.6.beta5";
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name = "networkx-2.7-update.patch";
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rev = "8452003846a7303100847d8d0ed642fc642c11d6";
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sha256 = "sha256-A/XMouPlc2sjFp30L+56fBGJXydS2EtzfPOV98FCDqI=";
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})
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# https://trac.sagemath.org/ticket/33226
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(fetchSageDiff {
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base = "9.6.beta0";
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name = "giac-1.7.0-45-update.patch";
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rev = "33ea2adf01e9e2ce9f1e33779f0b1ac0d9d1989c";
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sha256 = "sha256-DOyxahf3+IaYdkgmAReNDCorRzMgO8+yiVrJ5TW1km0=";
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})
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# https://trac.sagemath.org/ticket/33398
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(fetchSageDiff {
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base = "9.6.beta4";
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name = "sympy-1.10-update.patch";
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rev = "6b7c3a28656180e42163dc10f7b4a571b93e5f27";
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sha256 = "sha256-fnUyM2yjHkCykKRfzQQ4glcUYmCS/fYzDzmCf0nuebk=";
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# The patch contains a whitespace change to a file that didn't exist in Sage 9.5.
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excludes = [ "build/*" "src/sage/manifolds/vector_bundle_fiber_element.py" ];
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})
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# docutils 0.18.1 now triggers Sphinx warnings. tolerate them for
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# now, because patching Sphinx is not feasible.
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# https://github.com/sphinx-doc/sphinx/issues/9777#issuecomment-1104481271
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./patches/docutils-0.18.1-deprecation.patch
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];
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patches = nixPatches ++ bugfixPatches ++ packageUpgradePatches;
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postPatch = ''
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# Make sure sage can at least be imported without setting any environment
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# variables. It won't be close to feature complete though.
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sed -i \
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"s|var(\"SAGE_ROOT\".*|var(\"SAGE_ROOT\", \"$out\")|" \
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src/sage/env.py
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# src/doc/en/reference/spkg/conf.py expects index.rst in its directory,
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# a list of external packages in the sage distribution (build/pkgs)
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# generated by the bootstrap script (which we don't run). this is not
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# relevant for other distributions, so remove it.
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rm src/doc/en/reference/spkg/conf.py
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sed -i "/spkg/d" src/doc/en/reference/index.rst
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# the bootstrap script also generates installation instructions for
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# arch, debian, fedora, cygwin and homebrew using data from build/pkgs.
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# we don't run the bootstrap script, so disable including the generated
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# files. docbuilding fails otherwise.
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sed -i "/literalinclude/d" src/doc/en/installation/source.rst
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'';
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buildPhase = "# do nothing";
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installPhase = ''
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cp -r . "$out"
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'';
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}
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