sageWithDoc: 10.6 -> 10.7 (#446708)

pkgs/by-name/sa/sage/patches/sphinx-docbuild-subprocesses.patch

···
 diff --git a/src/sage_docbuild/builders.py b/src/sage_docbuild/builders.py
-index ab39d93c280..e6501c083d5 100644
+index 91035a01f1c..24f3d0c7c12 100644
 --- a/src/sage_docbuild/builders.py
 +++ b/src/sage_docbuild/builders.py
-@@ -106,31 +106,6 @@ def builder_helper(type):
-     """
-     Return a function which builds the documentation for
-     output type ``type``.
--
--    TESTS:
--
--    Check that :issue:`25161` has been resolved::
--
--        sage: from sage_docbuild.builders import DocBuilder
--        sage: from sage_docbuild.__main__ import setup_parser
--        sage: DocBuilder._options = setup_parser().parse_args([]) # builder_helper needs _options to be set
--
--        sage: import sage_docbuild.sphinxbuild
--        sage: def raiseBaseException():
--        ....:     raise BaseException("abort pool operation")
--        sage: original_runsphinx, sage_docbuild.sphinxbuild.runsphinx = sage_docbuild.sphinxbuild.runsphinx, raiseBaseException
--
--        sage: from sage.misc.temporary_file import tmp_dir
--        sage: os.environ['SAGE_DOC'] = tmp_dir()
--        sage: sage.env.var('SAGE_DOC') # random
--        sage: from sage_docbuild.builders import builder_helper, build_ref_doc
--        sage: from sage_docbuild.builders import _build_many as build_many
--        sage: helper = builder_helper("html")
--        sage: try:  # optional - sagemath_doc_html
--        ....:     build_many(build_ref_doc, [("docname", "en", "html", {})])
--        ....: except Exception as E:
--        ....:     "Non-exception during docbuild: abort pool operation" in str(E)
--        True
-     """
-     def f(self, *args, **kwds):
-         output_dir = self._output_dir(type)
-@@ -157,10 +132,9 @@ def builder_helper(type):
+@@ -130,10 +130,9 @@ def builder_helper(type):
          logger.debug(build_command)
  
          # Run Sphinx with Sage's special logger

pkgs/by-name/sa/sage/sage-src.nix

···
   stdenv,
   lib,
   fetchFromGitHub,
-  fetchpatch,
   fetchpatch2,
   fetchurl,
 }:
···
 # all get the same sources with the same patches applied.
 
 stdenv.mkDerivation rec {
-  version = "10.6";
+  version = "10.7";
   pname = "sage-src";
 
   src = fetchFromGitHub {
     owner = "sagemath";
     repo = "sage";
     rev = version;
-    hash = "sha256-ZDYFq2lJXjnADFdX6y7sskaF0rkT5EIcdN8/bs00TlQ=";
+    hash = "sha256-nYlBmKQ9TD5EAVvNwo8YzqAd5IUCpTU3kBTqUH21IxQ=";
   };
 
   # contains essential files (e.g., setup.cfg) generated by the bootstrap script.
···
   configure-src = fetchurl {
     # the hash below is the tagged commit's _parent_. it can also be found by looking for
     # the "configure" asset at https://github.com/sagemath/sage/releases/tag/${version}
-    url = "mirror://sageupstream/configure/configure-10741006a4794b7db82942db55b97033d5905431.tar.gz";
-    hash = "sha256-7LqY+vwBlyukDfcRtuR99vpC3hcBo8WRUuJjiFFq9xk=";
+    url = "mirror://sageupstream/configure/configure-858268b40010e5ed6da13488ad0f52cda4d1f70e.tar.gz";
+    hash = "sha256-TsVX+wUWr+keCXmGQp1OHGXgNc7luajyGxfTwduSEtc=";
   };
 
   # Patches needed because of particularities of nix or the way this is packaged.
···
     # compile libs/gap/element.pyx with -O1
     # a more conservative version of https://github.com/sagemath/sage/pull/37951
     ./patches/gap-element-crash.patch
+
+    # https://github.com/sagemath/sage/pull/40895, positively reviewed
+    (fetchpatch2 {
+      name = "doctest-absolute-path.patch";
+      url = "https://github.com/sagemath/sage/commit/3de32dccd2e32e5452ca3adf5bd63cbacb64ba9d.patch?full_index=1";
+      hash = "sha256-rp+9d8Y6kifWzufE07GWU68txPn//w7uMn4LcpITaBs=";
+    })
   ];
 
   # Patches needed because of package updates. We could just pin the versions of
···
   # should come from or be proposed to upstream. This list will probably never
   # be empty since dependencies update all the time.
   packageUpgradePatches = [
-    # https://github.com/sagemath/sage/pull/39737, positively reviewed
-    (fetchpatch {
-      name = "sphinx-8.2-update.patch";
-      url = "https://github.com/sagemath/sage/pull/39737/commits/4e485497fb5e20a056ffd2178360b88f482447d8.patch";
-      hash = "sha256-oIcFeol0SW5dE/iE6mbYyas3kXIjOwsG1k+h99R94x8=";
-    })
-
-    # https://github.com/sagemath/sage/pull/40285, landed in 10.7.beta7
-    (fetchpatch2 {
-      name = "scipy-1.16-update.patch";
-      url = "https://github.com/sagemath/sage/commit/d0cbe9d353722580f98a327694f1a361c9b83ccd.patch?full_index=1";
-      hash = "sha256-uV2nttxCKDsNqMf1O+lUmuoiDrx7/CfiS00JBb9kiM8=";
-    })
-
-    # https://github.com/sagemath/sage/pull/40156, landed in 10.7.beta5
-    (fetchpatch2 {
-      name = "cython-3.1-update.patch";
-      url = "https://github.com/sagemath/sage/commit/5ea8db28977ec113aec3c4c4b208d1783e3937a7.patch?full_index=1";
-      hash = "sha256-5DPPxMuidPpVHrjK8j0UVZzuwiVy9vQzFd6hBYwNAok=";
-    })
-
-    # https://github.com/sagemath/sage/pull/40175, landed in 10.7.beta8
-    (fetchpatch2 {
-      name = "rpy2-3.6-update.patch";
-      url = "https://github.com/sagemath/sage/commit/db2d8db99d9a7dfa1972d534ecd89e3d2ba5c55b.patch?full_index=1";
-      hash = "sha256-6Bk0uGlKFsiDsgv+ljMC1YnmAT+g+he6aFNkpvw2on0=";
-    })
   ];
 
   patches = nixPatches ++ bugfixPatches ++ packageUpgradePatches;

pkgs/by-name/sa/sage/sagedoc.nix

···
     chmod -R 755 "$SAGE_DOC_SRC_OVERRIDE"
   '';
 
-  buildPhase = ''
-    export SAGE_NUM_THREADS="$NIX_BUILD_CORES"
+  preBuild = ''
+    export SAGE_ROOT="${sage-with-env.env.lib.src}"
+    export PATH="${sage-with-env}/bin:$PATH"
     export HOME="$TMPDIR/sage_home"
     mkdir -p "$HOME"
 
···
     # jupyter-sphinx calls the sagemath jupyter kernel during docbuild
     export JUPYTER_PATH=${jupyter-kernel-specs}
 
-    ${sage-with-env}/bin/sage --docbuild \
-      --mathjax \
-      --no-pdf-links \
-      all html
+    # the Makefile tries to guess SAGE_DOC, but in a buggy way (changed in 10.8)
+    export SAGE_DOC="$SAGE_DOC_OVERRIDE"
+
+    cd docsrc
   '';
+
+  enableParallelBuilding = true;
 
   installPhase = ''
     cd "$SAGE_DOC_OVERRIDE"