sage: staging-next 2023-01-05 upgrade fixes

pkgs/applications/science/math/sage/patches/ipywidgets-on_submit-deprecationwarning.patch

@@ -0,0 +1,13 @@
+diff --git a/src/sage/interacts/library.py b/src/sage/interacts/library.py
+index 06d680109a..139b00bfd1 100644
+--- a/src/sage/interacts/library.py
++++ b/src/sage/interacts/library.py
+@@ -1434,6 +1434,8 @@ def riemann_sum(
+     creates the mathlet::
+
+         sage: interacts.calculus.riemann_sum()
++        ...
++        DeprecationWarning: on_submit is deprecated. Instead, set the .continuous_update attribute to False and observe the value changing with: mywidget.observe(callback, 'value').
+         Manual interactive function <function riemann_sum at ...> with 9 widgets
+           title: HTMLText(value='<h2>Riemann integral with random sampling</h2>')
+           f: EvalText(value='x^2+1', description='$f(x)=$', layout=Layout(max_width='41em'))

pkgs/applications/science/math/sage/sage-src.nix

@@ -80,10 +80,6 @@ stdenv.mkDerivation rec {
     # Parallelize docubuild using subprocesses, fixing an isolation issue. See
     # https://groups.google.com/forum/#!topic/sage-packaging/YGOm8tkADrE
     ./patches/sphinx-docbuild-subprocesses.patch
-
-    # Docbuilding copies files from the Nix store and expects them to be writable.
-    # Remove when https://github.com/matplotlib/matplotlib/pull/23805 lands.
-    ./patches/sphinx-fix-matplotlib-css-perms.patch
   ];
 
   # Since sage unfortunately does not release bugfix releases, packagers must
@@ -163,6 +159,33 @@ stdenv.mkDerivation rec {
     # conflicts. The patch below contains rebased versions.
     ./patches/pari-2.15.1-upgrade-rebased.patch
 
+    # https://trac.sagemath.org/ticket/34668
+    (fetchSageDiff {
+      name = "matplotlib-3.6-upgrade.patch";
+      base = "9.8.beta2";
+      rev = "5501e0de0dca1cff0355326dd42bd8c7e5749568";
+      sha256 = "sha256-ceJkVaecIsZewN8v/3gPQXFbFjv5Akz6zEFg/ToXdek=";
+    })
+
+    # https://trac.sagemath.org/ticket/34693
+    (fetchSageDiff {
+      name = "matplotlib-3.6-docbuilding.patch";
+      base = "9.8.beta4";
+      rev = "64589686c261d33e6b5aff2589bcae8af004bcc6";
+      sha256 = "sha256-j5AMY1TmhP+HBBBYaFZSkABJ5vtwe6iP2LRfGEgSm8Q=";
+    })
+
+    # https://trac.sagemath.org/ticket/34615
+    (fetchSageDiff {
+      name = "sphinx-5.2-upgrade.patch";
+      base = "9.8.beta1";
+      rev = "8f8af65e54d3a9962cfab40f15dc23f4e955b43f";
+      sha256 = "sha256-yhDdyxnXSSkqLcuOPBWSEBc26rk1Od3gLcWW8S2p8bY=";
+    })
+
+    # temporarily paper over https://github.com/jupyter-widgets/ipywidgets/issues/3669
+    ./patches/ipywidgets-on_submit-deprecationwarning.patch
+
     # Sage uses mixed integer programs (MIPs) to find edge disjoint
     # spanning trees. For some reason, aarch64 glpk takes much longer
     # than x86_64 glpk to solve such MIPs. Since the MIP formulation