Merge tag '9.8.rc0' into public/33360

SageMath version 9.8.rc0, Release Date: 2023-01-29

.github/workflows/docker.yml

@@ -22,6 +22,7 @@ on:
            "ubuntu-focal",
            "ubuntu-jammy",
            "ubuntu-kinetic",
+           "ubuntu-lunar",
            "debian-buster",
            "debian-bullseye",
            "debian-bookworm",
@@ -32,6 +33,7 @@ on:
            "linuxmint-20.2",
            "linuxmint-20.3",
            "linuxmint-21",
+           "linuxmint-21.1",
            "fedora-29-python3.8",
            "fedora-30-python3.8",
            "fedora-31",
@@ -41,11 +43,13 @@ on:
            "fedora-35",
            "fedora-36",
            "fedora-37",
+           "fedora-38",
            "centos-7-devtoolset-gcc_11",
            "centos-stream-8-python3.9",
            "centos-stream-9-python3.9",
            "gentoo-python3.9",
            "gentoo-python3.10",
+           "gentoo-python3.11",
            "archlinux-latest",
            "opensuse-15.3-gcc_11-python3.9",
            "opensuse-15.4-gcc_11-python3.10",

.github/workflows/lint.yml

@@ -35,7 +35,7 @@ jobs:
     - name: Install relint
       run: pip install tox relint
     - name: Lint using relint
-      run: tox -e relint src/sage/
+      run: tox -e relint -- src/sage/
   lint-rst:
     name: Validate docstring markup as RST
     runs-on: ubuntu-latest

.zenodo.json

@@ -1,10 +1,10 @@
 {
     "description": "Mirror of the Sage https://sagemath.org/ source tree", 
     "license": "other-open", 
-    "title": "sagemath/sage: 9.8.beta6", 
-    "version": "9.8.beta6", 
+    "title": "sagemath/sage: 9.8.rc0", 
+    "version": "9.8.rc0", 
     "upload_type": "software", 
-    "publication_date": "2022-12-21", 
+    "publication_date": "2023-01-29", 
     "creators": [
         {
             "affiliation": "SageMath.org", 
@@ -15,7 +15,7 @@
     "related_identifiers": [
         {
             "scheme": "url", 
-            "identifier": "https://github.com/sagemath/sage/tree/9.8.beta6", 
+            "identifier": "https://github.com/sagemath/sage/tree/9.8.rc0", 
             "relation": "isSupplementTo"
         }, 
         {

README.md

@@ -228,16 +228,37 @@ in the Installation Guide.
     (If the bootstrapping prerequisites are not installed, this command will
     download a package providing pre-built bootstrap output instead.)
 
-6.  [macOS with homebrew] Set required environment variables for the build:
+6.  Sanitize the build environment. Use the command
 
-        $ source ./.homebrew-build-env
+        $ env
 
-    This is to make some of Homebrew's packages (so-called keg-only packages)
-    available for the build. Run it once to apply the suggestions for the current
-    terminal session. You may need to repeat this command before you rebuild Sage
-    from a new terminal session, or after installing additional homebrew packages.
-    (You can also add it to your shell profile so that it gets run automatically
-    in all future sessions.)
+    to inspect the current environment variables, in particular `PATH`,
+    `PKG_CONFIG_PATH`, `LD_LIBRARY_PATH`, `CFLAGS`, `CPPFLAGS`, `CXXFLAGS`,
+    and `LDFLAGS` (if set).
+
+    Remove items from these (colon-separated) environment variables
+    that Sage should not use for its own build. In particular, remove
+    items if they refer to a previous Sage installation.
+
+    - [WSL] In particular, WSL imports many items from the Windows
+      `PATH` variable into the Linux environment, which can lead to
+      confusing build errors. These items typically start with `/mnt/c`.
+      It is best to remove all of them from the environment variables.
+      For example, you can set `PATH` using the command:
+
+            $ export PATH=/usr/sbin/:/sbin/:/bin/:/usr/lib/wsl/lib/
+
+    - [macOS with homebrew] Set required environment variables for the build:
+
+            $ source ./.homebrew-build-env
+
+      This is to make some of Homebrew's packages (so-called keg-only
+      packages) available for the build. Run it once to apply the
+      suggestions for the current terminal session. You may need to
+      repeat this command before you rebuild Sage from a new terminal
+      session, or after installing additional homebrew packages.  (You
+      can also add it to your shell profile so that it gets run
+      automatically in all future sessions.)
 
 7.  Optionally, decide on the installation prefix (`SAGE_LOCAL`):
 

VERSION.txt

@@ -1 +1 @@
-SageMath version 9.8.beta6, Release Date: 2022-12-21
+SageMath version 9.8.rc0, Release Date: 2023-01-29

build/pkgs/babel/checksums.ini

@@ -1,5 +1,5 @@
 tarball=Babel-VERSION.tar.gz
-sha1=1ce15f82eba5184cabe6ac1491cb58262e27adfd
-md5=7166099733d78aa857d74fa50d8ff58c
-cksum=1695340328
+sha1=75baeb68d7481a67ba203191aa460c56b0221fda
+md5=9ee7784fd452d456206ecd3a12694010
+cksum=227595701
 upstream_url=https://pypi.io/packages/source/b/babel/Babel-VERSION.tar.gz

build/pkgs/babel/package-version.txt

@@ -1 +1 @@
-2.9.1
+2.11.0

build/pkgs/configure/checksums.ini

@@ -1,4 +1,4 @@
 tarball=configure-VERSION.tar.gz
-sha1=03fa7a341ddf380aa4fe54a85b0c41debd2ffe7e
-md5=6fdfcb62364de0e8c8d57f5d3a38c909
-cksum=3919137984
+sha1=cc57d00f6f8fd1c5123b6f7dee07d8c6c717859d
+md5=62d1ead9dd1ddfa11a1c4164f197bddb
+cksum=580469152

build/pkgs/configure/package-version.txt

@@ -1 +1 @@
-7819a59980b78950a0eb4aa18c529efa380d687b
+0f25b00a8e24881db418b69dcfe499d6437aa5b7

build/pkgs/contourpy/dependencies

@@ -1,4 +1,4 @@
-$(PYTHON) | $(PYTHON_TOOLCHAIN) pybind11
+$(PYTHON) numpy | $(PYTHON_TOOLCHAIN) pybind11
 
 ----------
 All lines of this file are ignored except the first.

build/pkgs/cython/package-version.txt

@@ -1 +1 @@
-0.29.32.p1
+0.29.32.p2

build/pkgs/cython/patches/trashcan.patch

@@ -1,5 +1,7 @@
 See https://github.com/cython/cython/pull/2842
 
+and https://github.com/cython/cython/pull/4475
+
 commit c47c4ef735c4b7f1863b21bbe6f112b06c4aad05
 Author: Jeroen Demeyer <J.Demeyer@UGent.be>
 Date:   Thu Feb 14 10:02:41 2019 +0100
@@ -128,7 +130,7 @@ diff --git a/Cython/Utility/ExtensionTypes.c b/Cython/Utility/ExtensionTypes.c
 index 50d0e21..ca2adbe 100644
 --- a/Cython/Utility/ExtensionTypes.c
 +++ b/Cython/Utility/ExtensionTypes.c
-@@ -74,6 +74,49 @@ static int __Pyx_PyType_Ready(PyTypeObject *t) {
+@@ -74,6 +74,54 @@ static int __Pyx_PyType_Ready(PyTypeObject *t) {
      return r;
  }
 
@@ -140,7 +142,12 @@ index 50d0e21..ca2adbe 100644
 +
 +// This requires CPython version >= 2.7.4
 +// (or >= 3.2.4 but we don't support such old Python 3 versions anyway)
-+#if CYTHON_COMPILING_IN_CPYTHON && PY_VERSION_HEX >= 0x02070400
++#if CYTHON_COMPILING_IN_CPYTHON && PY_VERSION_HEX >= 0x03080000
++// https://github.com/python/cpython/pull/11841 merged so Cython reimplementation
++// is no longer necessary
++#define __Pyx_TRASHCAN_BEGIN Py_TRASHCAN_BEGIN
++#define __Pyx_TRASHCAN_END Py_TRASHCAN_END
++#elif CYTHON_COMPILING_IN_CPYTHON && PY_VERSION_HEX >= 0x02070400
 +#define __Pyx_TRASHCAN_BEGIN_CONDITION(op, cond) \
 +    do { \
 +        PyThreadState *_tstate = NULL; \

build/pkgs/dsdp/SPKG.rst

@@ -0,0 +1,27 @@
+dsdp: Semidefinite programming solver
+=====================================
+
+Description
+-----------
+
+Implementation of an interior-point method for semidefinite
+programming. It provides primal and dual solutions, exploits low-rank
+structure and sparsity in the data, and has relatively low memory
+requirements for an interior-point method. It allows feasible and
+infeasible starting points and provides approximate certificates of
+infeasibility when no feasible solution exists. The dual-scaling
+algorithm implemented in this package has a convergence proof and
+worst-case polynomial complexity under mild assumptions on the data.
+
+
+License
+-------
+
+Permissive open source license
+https://www.mcs.anl.gov/hs/software/DSDP/Copyright.txt
+
+
+Upstream Contact
+----------------
+
+https://www.mcs.anl.gov/hs/software/DSDP/

build/pkgs/dsdp/checksums.ini

@@ -0,0 +1,5 @@
+tarball=dsdp_VERSION.orig.tar.gz
+sha1=d80b072acf5396561809266ff1c93e7927697aeb
+md5=7f49a35f3fe7b5802d29ee2435fdb67e
+cksum=955095458
+upstream_url=http://deb.debian.org/debian/pool/main/d/dsdp/dsdp_VERSION.orig.tar.gz

build/pkgs/dsdp/dependencies

@@ -0,0 +1 @@
+$(BLAS) | cmake

build/pkgs/dsdp/distros/arch.txt

@@ -0,0 +1 @@
+dsdp

build/pkgs/dsdp/distros/conda.txt

@@ -0,0 +1 @@
+dsdp

build/pkgs/dsdp/distros/debian.txt

@@ -0,0 +1 @@
+libdsdp-dev

build/pkgs/dsdp/distros/fedora.txt

@@ -0,0 +1 @@
+DSDP-devel

build/pkgs/dsdp/distros/freebsd.txt

@@ -0,0 +1 @@
+math/dsdp

build/pkgs/dsdp/distros/gentoo.txt

@@ -0,0 +1 @@
+sci-libs/dsdp

build/pkgs/dsdp/distros/macports.txt

@@ -0,0 +1 @@
+DSDP

build/pkgs/dsdp/distros/repology.txt

@@ -0,0 +1 @@
+dsdp

build/pkgs/dsdp/package-version.txt

@@ -0,0 +1 @@
+5.8

build/pkgs/dsdp/patches/CMakeLists.txt

@@ -0,0 +1,52 @@
+cmake_minimum_required(VERSION 3.0)
+project (dsdp VERSION 5.8 LANGUAGES C)
+
+link_directories(${LIBRARY_PREFIX}/lib)
+
+find_package(LAPACK REQUIRED)
+
+include_directories(include src/vecmat src/solver src/sdp)
+FILE (GLOB_RECURSE   SRCS   src/*.c)
+if(WIN32)
+  list(APPEND SRCS dsdp.def)
+endif()
+
+## DSDP shared library
+add_library(dsdp ${SRCS})
+target_link_libraries(dsdp ${LAPACK_LIBRARIES})
+target_include_directories(dsdp PUBLIC include src/vecmat src/solver src/sdp)
+target_compile_options(dsdp PUBLIC -O2)
+
+if(WIN32)
+  add_definitions(-D_CRT_SECURE_NO_WARNINGS)
+  target_compile_definitions(dsdp PUBLIC DSDP_MS_TIME)
+else()
+  target_link_libraries(dsdp m)
+  target_compile_definitions(dsdp PUBLIC DSDP_TIME)
+endif()
+
+## DSDP5 executable
+if(NOT WIN32)
+  add_executable(dsdp5 examples/readsdpa.c)
+  add_dependencies(dsdp5 dsdp)
+  target_link_libraries(dsdp5 dsdp)
+  target_include_directories(dsdp5 PUBLIC include)
+endif()
+if(APPLE)
+  target_compile_definitions(dsdp5 PUBLIC _FORTIFY_SOURCE=0)
+endif()
+
+if(WIN32)
+install(TARGETS dsdp
+        RUNTIME DESTINATION bin
+        LIBRARY DESTINATION lib
+        ARCHIVE DESTINATION lib)
+else()
+install(TARGETS dsdp5 dsdp
+        RUNTIME DESTINATION bin
+        LIBRARY DESTINATION lib
+        ARCHIVE DESTINATION lib)
+endif()
+
+FILE (GLOB DSDP_HEADERS include/*.h)
+INSTALL(FILES ${DSDP_HEADERS} DESTINATION include)

build/pkgs/dsdp/patches/conda-forge-malloc.patch

@@ -0,0 +1,11 @@
+diff -ruN DSDP5.8/src/sys/dsdploginfo.c DSDP5.8_patched/src/sys/dsdploginfo.c
+--- DSDP5.8/src/sys/dsdploginfo.c	2005-10-21 21:31:15.000000000 +0200
++++ DSDP5.8_patched/src/sys/dsdploginfo.c	2018-04-30 09:34:52.000000000 +0200
+@@ -6,7 +6,6 @@
+ #include <stdarg.h>
+ #include <sys/types.h>
+ #include <stdlib.h>
+-#include <malloc.h>
+ #include "dsdpsys.h"
+ #include "dsdpbasictypes.h"
+

build/pkgs/dsdp/patches/debian-type-mismatch.patch

@@ -0,0 +1,39 @@
+Description: Use correct integer type for Fortran prototypes and variables
+ GNU Fortran's default integer width is 32-bit, the same as GCC, therefore use
+ int rather than long int when interfacing with Fortran. This was an issue on
+ 64-bit big-endian systems, since the upper 32 bits of the long would be set,
+ which would also be lost when truncating to a 32-bit integer.
+Author: James Clarke <jrtc27@debian.org>
+Bug-Debian: https://bugs.debian.org/857067
+Last-Update: 2017-03-28
+---
+This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
+--- a/include/dsdplapack.h
++++ b/include/dsdplapack.h
+@@ -4,11 +4,11 @@
+ \file dsdplapack.h
+ \brief DSDP uses BLAS and LAPACK for many of its operations.
+ */
+-
+-typedef long int ffinteger;
+ /*
+-typedef int ffinteger;
++typedef long int ffinteger;
+ */
++typedef int ffinteger;
++
+ /*
+ #define  __DSDP_NONAMEMANGLING
+ #undef  __DSDP_NONAMEMANGLING
+--- a/src/vecmat/dtrsm2.c
++++ b/src/vecmat/dtrsm2.c
+@@ -1,7 +1,7 @@
+ #include "dsdplapack.h"
+
+-typedef long int integer;
+-typedef long int logical;
++typedef int integer;
++typedef int logical;
+
+ #define max(a,b) ((a) >= (b) ? (a) : (b))
+ #define dmax(a,b) (double)max(a,b)

build/pkgs/dsdp/spkg-install.in

@@ -0,0 +1,9 @@
+cd src
+cp ../patches/CMakeLists.txt .
+sdh_cmake -DCMAKE_BUILD_TYPE=Release \
+          -DBUILD_SHARED_LIBS=ON \
+          -DBLA_VENDOR=OpenBLAS \
+          -DBLAS_LIBRARIES="$(pkg-config --libs blas)" \
+          -DLAPACK_LIBRARIES="$(pkg-config --libs lapack)"
+sdh_make
+sdh_make_install

build/pkgs/dsdp/type

@@ -0,0 +1 @@
+optional

build/pkgs/fplll/checksums.ini

@@ -1,5 +1,5 @@
 tarball=fplll-VERSION.tar.gz
-sha1=d84ae04deee3a29033c6e28e40c67ed14f8fff32
-md5=9e8ed4e5ff7f3231f9ccf397dca9a117
-cksum=855019078
+sha1=8353a0db588d891951aa9760fbe490f4e308de8d
+md5=7e333d7d0e535d27c591271340e28865
+cksum=2543682321
 upstream_url=https://github.com/fplll/fplll/releases/download/VERSION/fplll-VERSION.tar.gz

build/pkgs/fplll/package-version.txt

@@ -1 +1 @@
-5.4.2
+5.4.4

build/pkgs/fplll/spkg-configure.m4

@@ -8,7 +8,7 @@ SAGE_SPKG_CONFIGURE([fplll], [
     dnl Trac #31025: FPLLL/FPyLLL make no guarantee regarding compatibility
     dnl other than "whatever versions were released at the same time should work together"
     PKG_CHECK_MODULES([FPLLL],
-        [fplll >= 5.4.0 fplll <= 5.4.2],
+        [fplll >= 5.4.4 fplll <= 5.4.4],
         [
         AC_MSG_CHECKING([whether BKZ default strategy JSON is installed])
         AC_LANG_PUSH([C++])

build/pkgs/fpylll/checksums.ini

@@ -1,5 +1,5 @@
 tarball=fpylll-VERSION.tar.gz
-sha1=9c4951f4ec50f36805129df4b821e5ea18b7ad30
-md5=d802205f818a9ae5846f8eaa34db7b5c
-cksum=3615125514
+sha1=2dcc29155ee11b4460fc79c2d933b6b8230c89f6
+md5=828b3a382594d34d8788e9ff041125bd
+cksum=921330875
 upstream_url=https://github.com/fplll/fpylll/releases/download/VERSION/fpylll-VERSION.tar.gz

build/pkgs/fpylll/install-requires.txt

@@ -1 +1 @@
-fpylll >=0.5.6, <=0.5.7
+fpylll >=0.5.9, <=0.5.9

build/pkgs/fpylll/package-version.txt

@@ -1 +1 @@
-0.5.7
+0.5.9