Merge pull request #117123 from collares/cypari-update

cypari2, cysignals: updates

pkgs/applications/science/math/gap/default.nix

@@ -101,6 +101,9 @@ stdenv.mkDerivation rec {
       excludes = ["tst/testinstall/stringobj.tst"];
       sha256 = "1mz5b4mbw2jdd1ypp5s0dy6pp0jsvwsxr2dm4kbkls20r1r192sc";
     })
+
+    # fixes aarch64 gc crashes: https://github.com/gap-system/gap/pull/3965
+    ./mark-genstackfuncbags-as-noinline.patch
   ];
 
   postPatch = ''

pkgs/applications/science/math/gap/mark-genstackfuncbags-as-noinline.patch

@@ -0,0 +1,13 @@
+diff --git a/src/gasman.c b/src/gasman.c
+index 417811401..314a74190 100644
+--- a/src/gasman.c
++++ b/src/gasman.c
+@@ -1861,7 +1861,7 @@ void SparcStackFuncBags( void )
+ #endif
+ 
+ 
+-void GenStackFuncBags ( void )
++NOINLINE void GenStackFuncBags ( void )
+ {
+     Bag *               top;            /* top of stack                    */
+     Bag *               p;              /* loop variable                   */

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

@@ -87,6 +87,14 @@ stdenv.mkDerivation rec {
       rev = "2959ac792ebd6107fe87c9af1541083de5ba02d6";
       sha256 = "sha256-bWIpEGir9Kawak5CJegBMNcHm/CqhWmdru+emeSsvO0=";
     })
+
+    # fix intermittent errors in doctest/test.py: https://trac.sagemath.org/ticket/26912
+    (fetchSageDiff {
+      base = "9.3.beta8";
+      name = "set-cysignals-crash-ndebug.patch";
+      rev = "ca5257a5d0f32efc9f8f07e126020856270b1a18";
+      sha256 = "sha256-KViw63xE3O0eUiOYzoxNrr4NL+csql9GPJLDJCf/EZs=";
+    })
   ];
 
   # Patches needed because of package updates. We could just pin the versions of
@@ -153,6 +161,14 @@ stdenv.mkDerivation rec {
       rev = "75c1516f0abb9e6f8c335e38e4031f6ef674ed30";
       sha256 = "sha256-RukkieIZcXNrju904H2oyGKdtpdE+9vNzvyjN2IBNg0=";
     })
+
+    # cypari 2.1.2 update (https://trac.sagemath.org/ticket/31029)
+    (fetchSageDiff {
+      base = "9.3.beta3";
+      name = "cypari-2.1.2-update.patch";
+      rev = "b9aadfd08e81d74ca7c229bb80eb853b592887d0";
+      sha256 = "sha256-eKaMy7kpu+YKdL8bPStgocxBCTfc2Z/10RrGy2LENFw=";
+    })
   ];
 
   patches = nixPatches ++ bugfixPatches ++ packageUpgradePatches;