sagemath: update to 10.8.

Author: dkwo

srcpkgs/sagemath/patches/40594-Fix_segfault_in_libgap.patch

@@ -0,0 +1,113 @@
+diff --git a/src/sage/config.py.in b/src/sage/config.py.in
+index de5ad8b2169..f75e951f3b8 100644
+--- a/src/sage/config.py.in
++++ b/src/sage/config.py.in
+@@ -21,7 +21,7 @@ MAXIMA = "@SAGE_MAXIMA@".replace("${prefix}", SAGE_LOCAL)
+ # Set this to the empty string if your ECL can load maxima without
+ # further prodding.
+ MAXIMA_FAS = "@SAGE_MAXIMA_FAS@".replace("${prefix}", SAGE_LOCAL)
+-MAXIMA_SHARE = "@SAGE_MAXIMA_SHARE@".replace("${prefix}", SAGE_LOCAL)
++MAXIMA_PREFIX = "@SAGE_MAXIMA_PREFIX@".replace("${prefix}", SAGE_LOCAL)
+ 
+ # Delete this line if your ECL can load Kenzo without further prodding.
+ KENZO_FAS = "@SAGE_KENZO_FAS@".replace("${prefix}", SAGE_LOCAL)
+diff --git a/src/sage/env.py b/src/sage/env.py
+index c7c46bf4ec3..71e87c3f0f6 100644
+--- a/src/sage/env.py
++++ b/src/sage/env.py
+@@ -204,7 +204,7 @@ def var(key: str, *fallbacks: Optional[str], force: bool = False) -> Optional[st
+ PPLPY_DOCS = var("PPLPY_DOCS", join(SAGE_SHARE, "doc", "pplpy"))
+ MAXIMA = var("MAXIMA", "maxima")
+ MAXIMA_FAS = var("MAXIMA_FAS")
+-MAXIMA_SHARE = var("MAXIMA_SHARE")
++MAXIMA_PREFIX = var("MAXIMA_PREFIX")
+ KENZO_FAS = var("KENZO_FAS")
+ SAGE_NAUTY_BINS_PREFIX = var("SAGE_NAUTY_BINS_PREFIX", "")
+ SAGE_ECMBIN = var("SAGE_ECMBIN", "ecm")
+diff --git a/src/sage/interfaces/maxima.py b/src/sage/interfaces/maxima.py
+index 154a2cc34e0..9df024abf39 100644
+--- a/src/sage/interfaces/maxima.py
++++ b/src/sage/interfaces/maxima.py
+@@ -515,7 +515,7 @@
+ 
+ import pexpect
+ 
+-from sage.env import MAXIMA
++from sage.env import MAXIMA, MAXIMA_PREFIX
+ from sage.interfaces.expect import Expect, ExpectElement, gc_disabled
+ from sage.interfaces.maxima_abstract import (
+     MaximaAbstract,
+@@ -587,11 +587,16 @@ def __init__(self, script_subdirectory=None, logfile=None, server=None,
+         # See trac # 6818.
+         init_code.append('nolabels : true')
+ 
++        env = {}
++        if MAXIMA_PREFIX:
++            env['MAXIMA_PREFIX'] = MAXIMA_PREFIX
++
+         MaximaAbstract.__init__(self, "maxima")
+         Expect.__init__(self,
+                         name='maxima',
+                         prompt=r'\(\%i[0-9]+\) ',
+                         command='{0} -p {1}'.format(MAXIMA, shlex.quote(STARTUP)),
++                        env=env,
+                         script_subdirectory=script_subdirectory,
+                         restart_on_ctrlc=False,
+                         verbose_start=False,
+diff --git a/src/sage/interfaces/maxima_lib.py b/src/sage/interfaces/maxima_lib.py
+index 637ef29a6f2..3d27bd834b5 100644
+--- a/src/sage/interfaces/maxima_lib.py
++++ b/src/sage/interfaces/maxima_lib.py
+@@ -112,11 +112,12 @@
+ #
+ #                  https://www.gnu.org/licenses/
+ # ****************************************************************************
++import os
+ 
+ import sage.rings.real_double
+ import sage.symbolic.expression
+ import sage.symbolic.integration.integral
+-from sage.env import MAXIMA_FAS, MAXIMA_SHARE
++from sage.env import MAXIMA_FAS, MAXIMA_PREFIX
+ from sage.interfaces.maxima_abstract import (
+     MaximaAbstract,
+     MaximaAbstractElement,
+@@ -141,6 +142,9 @@
+ ecl_eval("(in-package :maxima)")
+ ecl_eval("(set-locale-subdir)")
+ 
++if MAXIMA_PREFIX:
++    os.environ["MAXIMA_PREFIX"] = MAXIMA_PREFIX
++
+ # This workaround has to happen before any call to (set-pathnames).
+ # To be safe please do not call anything other than
+ # (set-locale-subdir) before this block.
+@@ -207,10 +211,10 @@
+ 
+ # Add search paths
+ # Keep these in sync with the default Maxima search paths defined in subprojects/maxima-<version>/src/share-subdirs_autogenerated.lisp
+-if MAXIMA_SHARE:
++if MAXIMA_PREFIX:
+     import_packages = "{affine,algebra,algebra/charsets,algebra/solver,amatrix,bernstein,calculus,cobyla,cobyla/ex,cobyla/lisp,colnew,colnew/ex1,colnew/ex2,colnew/ex3,colnew/ex4,colnew/lisp,combinatorics,contrib,contrib/Eulix,contrib/Grobner,contrib/Zeilberger,contrib/alt-display,contrib/altsimp,contrib/binsplit,contrib/bitwise,contrib/boolsimp,contrib/coma,contrib/diffequations,contrib/diffequations/tests,contrib/elliptic_curves,contrib/elliptic_curves/figures,contrib/format,contrib/fresnel,contrib/gentran,contrib/gentran/man,contrib/gentran/test,contrib/gf,contrib/integration,contrib/levin,contrib/lurkmathml,contrib/maxima-odesolve,contrib/maximaMathML,contrib/mcclim,contrib/noninteractive,contrib/odes,contrib/operatingsystem,contrib/prim,contrib/rand,contrib/rkf45,contrib/sarag,contrib/smath,contrib/state,contrib/symplectic_ode,contrib/trigtools,contrib/unicodedata,contrib/unit,contrib/vector3d,descriptive,diff_form,diff_form/tests,diffequations,distrib,draw,dynamics,ezunits,fftpack5,fftpack5/lisp,finance,fourier_elim,fractals,graphs,hompack,hompack/lisp,hypergeometric,integequations,integer_sequence,integration,lapack,lapack/blas,lapack/lapack,lbfgs,linearalgebra,logic,lsquares,macro,matrix,minpack,minpack/lisp,misc,mnewton,multiadditive,nelder_mead,numeric,numericalio,odepack,odepack/src,orthopoly,pdiff,physics,pslq,pytranslate,quantum,simplex,simplex/Tests,simplification,solve_rat_ineq,solve_rec,sound,stats,stringproc,sym,tensor,tensor/tracefree-code,test_batch_encodings,to_poly_solve,translators,translators/m2mj,trigonometry,utils,vector,z_transform}"
+-    ecl_eval(f'#$file_search_maxima: append(file_search_maxima, ["{MAXIMA_SHARE}/###.{{mac,mc,wxm}}", "{MAXIMA_SHARE}/{import_packages}/###.{{mac,mc,wxm}}"])$')
+-    ecl_eval(f'#$file_search_lisp: append(file_search_lisp, ["{MAXIMA_SHARE}/###.{{fas,lisp,lsp}}", "{MAXIMA_SHARE}/{import_packages}/###.{{fas,lisp,lsp}}"])$')
++    ecl_eval(f'#$file_search_maxima: append(file_search_maxima, ["{MAXIMA_PREFIX}/###.{{mac,mc,wxm}}", "{MAXIMA_PREFIX}/{import_packages}/###.{{mac,mc,wxm}}"])$')
++    ecl_eval(f'#$file_search_lisp: append(file_search_lisp, ["{MAXIMA_PREFIX}/###.{{fas,lisp,lsp}}", "{MAXIMA_PREFIX}/../src/###.{{fas,lisp,lsp}}", "{MAXIMA_PREFIX}/{import_packages}/###.{{fas,lisp,lsp}}"])$')
+ 
+ # Default options set in Maxima
+ # display2d -- no ascii art output
+diff --git a/subprojects/packagefiles/maxima/build/doc/info/meson.build b/subprojects/packagefiles/maxima/build/doc/info/meson.build
+new file mode 100644
+index 00000000000..e8c69f73526
+diff --git a/subprojects/packagefiles/maxima/build/doc/meson.build b/subprojects/packagefiles/maxima/build/doc/meson.build
+new file mode 100644
+index 00000000000..eba36e4bdc3
+diff --git a/subprojects/packagefiles/maxima/build/meson.build b/subprojects/packagefiles/maxima/build/meson.build
+new file mode 100644
+index 00000000000..4112780103d
+diff --git a/subprojects/packagefiles/maxima/infodir.patch b/subprojects/packagefiles/maxima/infodir.patch
+new file mode 100644
+index 00000000000..a4c037bb848
+diff --git a/subprojects/packagefiles/maxima/maxima_prefix_bin.patch b/subprojects/packagefiles/maxima/maxima_prefix_bin.patch
+new file mode 100644
+index 00000000000..0fced388ea9

srcpkgs/sagemath/patches/40816-Meson:_Build_docs_for_Maxima_as_well.patch

@@ -0,0 +1,13 @@
+diff --git a/src/sage/calculus/desolvers.py b/src/sage/calculus/desolvers.py
+index 7f6ba7967e1..89a56cb54e1 100644
+--- a/src/sage/calculus/desolvers.py
++++ b/src/sage/calculus/desolvers.py
+@@ -1621,7 +1621,7 @@ def desolve_odeint_inner(ivar):
+             assert len(des) == 1
+             dvar = dvars[0]
+             de = des[0]
+-            func = fast_float(de, dvar, ivar)
++            func = lambda y, t: fast_float(de, dvar, ivar)(y.item(), t)
+             if not compute_jac:
+                 Dfun = None
+             else:

srcpkgs/sagemath/patches/41021-Refactor_atexit.pyx_for_python_3.14.patch

@@ -0,0 +1,22 @@
+diff --git a/src/sage/topology/simplicial_set_examples.py b/src/sage/topology/simplicial_set_examples.py
+index be7a4084be2..cd69adb9c5a 100644
+--- a/src/sage/topology/simplicial_set_examples.py
++++ b/src/sage/topology/simplicial_set_examples.py
+@@ -655,7 +655,7 @@ def simplicial_data_from_kenzo_output(filename) -> dict:
+         sage: S4.homology(reduced=False)                                                # needs pyparsing
+         {0: Z, 1: 0, 2: 0, 3: 0, 4: Z}
+     """
+-    from pyparsing import OneOrMore, nestedExpr
++    from pyparsing import OneOrMore, nested_expr
+ 
+     with open(filename) as f:
+         data = f.read()
+@@ -675,7 +675,7 @@ def simplicial_data_from_kenzo_output(filename) -> dict:
+             end = new_dim_idx
+         if dim == 0:
+             simplex_string = data[data.find('Vertices :') + len('Vertices :'):end]
+-            vertices = OneOrMore(nestedExpr()).parseString(simplex_string).asList()[0]
++            vertices = OneOrMore(nested_expr()).parse_string(simplex_string).asList()[0]
+             for v in vertices:
+                 vertex = AbstractSimplex(0, name=v)
+                 simplex_data[vertex] = None

srcpkgs/sagemath/patches/41141-Fix_ipython_9.7.0.patch

@@ -1,6 +1,6 @@
 #! /bin/sh
 
-version=10.7
+version=10.8
 
 URL_BASE_PR="https://github.com/sagemath/sage/pull/"
 URL_BASE_COMPARE="https://github.com/sagemath/sage/compare/${version}..."
@@ -30,7 +30,11 @@ get_pr() {
 # run from patches dir
 cd $(dirname "$0")
 
-# positive review
-get_pr 40594 "Fix segfault in libgap"
-get_pr 41021 "Refactor atexit.pyx for python 3.14"
-get_pr 41141 "Fix compatibility issue for ipython 9.7.0"
+# merged/positive review
+
+get_pr 41395 "Fix test failures with pyparsing 3.3"
+get_pr 41342 "Fix a test failure with numpy 2.4"
+
+# under review
+
+get_pr 40816 "Meson: Build docs for Maxima as well"