Merge tag '9.8.beta6' into public/33360

SageMath version 9.8.beta6, Release Date: 2022-12-21
sagemath · Jan 15, 2023 · 100b39c · 100b39c
2 parents 4ac2c9b + 2114066
commit 100b39c
Show file tree

Hide file tree

Showing 833 changed files with 19,231 additions and 7,192 deletions.
diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml
@@ -26,7 +26,7 @@ jobs:
     steps:
       - name: Checkout
         id: checkout
-        uses: actions/checkout@v2
+        uses: actions/checkout@v3
 
       - name: Prepare
         id: prepare
@@ -55,7 +55,7 @@ jobs:
 
       - name: Set up node to install pyright
         if: always() && steps.prepare.outcome == 'success'
-        uses: actions/setup-node@v1
+        uses: actions/setup-node@v3
         with:
           node-version: '12'
 

diff --git a/.github/workflows/ci-conda.yml b/.github/workflows/ci-conda.yml
@@ -29,7 +29,7 @@ jobs:
         conda-env: [environment, environment-optional]
 
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
 
       - name: Check for Miniconda
         id: check_conda

diff --git a/.github/workflows/ci-cygwin-minimal.yml b/.github/workflows/ci-cygwin-minimal.yml
diff --git a/.github/workflows/ci-cygwin-standard.yml b/.github/workflows/ci-cygwin-standard.yml
@@ -61,11 +61,13 @@ jobs:
     needs: [cygwin-stage-i-a, cygwin-stage-i-b]
 
   cygwin-stage-ii-e:
-    uses: ./.github/workflows/cygwin.yml
-    with:
-      stage: ii-e
-      previous_stages: i-*
-      targets: threejs tachyon pillow jmol m4rie sympy lrcalc lcalc symmetrica cliquer libbraiding planarity rw elliptic_curves combinatorial_designs zn_poly sympow
+    env:
+      STAGE: ii-e
+      PREVIOUS_STAGES: i-*
+      TARGETS: threejs tachyon pillow jmol m4rie sympy lrcalc lcalc symmetrica cliquer libbraiding planarity rw elliptic_curves combinatorial_designs sympow
+      LOCAL_ARTIFACT_NAME: sage-local-commit-${{ github.sha }}-cygwin-${{ matrix.pkgs }}
+      LOGS_ARTIFACT_NAME: logs-commit-${{ github.sha }}-cygwin-${{ matrix.pkgs }}
+
     needs: [cygwin-stage-i-a, cygwin-stage-i-b]
 
 ############################################## stage-iii ##########################################

diff --git a/.github/workflows/ci-linux.yml b/.github/workflows/ci-linux.yml
@@ -51,6 +51,7 @@ jobs:
     with:
       # Build incrementally from previous stage (pre)
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       docker_targets: "with-targets with-targets-optional"
@@ -82,6 +83,7 @@ jobs:
     with:
       # Build incrementally from previous stage (pre)
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       docker_targets: "with-targets with-targets-optional"
@@ -97,6 +99,7 @@ jobs:
     needs: [minimal]
     uses: ./.github/workflows/docker.yml
     with:
+      free_disk_space: true
       # Build from scratch
       docker_targets: "with-system-packages configured with-targets-pre"
       # FIXME: duplicated from env.TARGETS
@@ -111,6 +114,7 @@ jobs:
     uses: ./.github/workflows/docker.yml
     with:
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       tox_packages_factors: >-
@@ -125,6 +129,7 @@ jobs:
     uses: ./.github/workflows/docker.yml
     with:
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       tox_packages_factors: >-
@@ -138,6 +143,7 @@ jobs:
     uses: ./.github/workflows/docker.yml
     with:
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       tox_packages_factors: >-
@@ -151,6 +157,7 @@ jobs:
     uses: ./.github/workflows/docker.yml
     with:
       incremental: true
+      free_disk_space: true
       from_docker_repository: ghcr.io/${{ github.repository }}/
       from_docker_target: "with-targets-pre"
       tox_packages_factors: >-
@@ -171,7 +178,7 @@ jobs:
       TOX_ENV: local-${{ matrix.tox_system_factor }}-${{ matrix.tox_packages_factor }}
       LOGS_ARTIFACT_NAME: logs-commit-${{ github.sha }}-tox-local-${{ matrix.tox_system_factor }}-${{ matrix.tox_packages_factor }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Install test prerequisites
         run: |
           sudo DEBIAN_FRONTEND=noninteractive apt-get update
@@ -185,7 +192,7 @@ jobs:
         run: |
           mkdir -p "artifacts/$LOGS_ARTIFACT_NAME"; cp -r .tox/*/log "artifacts/$LOGS_ARTIFACT_NAME"
         if: always()
-      - uses: actions/upload-artifact@v1
+      - uses: actions/upload-artifact@v3
         with:
           path: artifacts
           name: ${{ env.LOGS_ARTIFACT_NAME }}

diff --git a/.github/workflows/ci-macos.yml b/.github/workflows/ci-macos.yml
@@ -42,25 +42,21 @@ jobs:
         # python3_xcode is only accepted if enough packages are available from the system
         # --> to test "minimal", we would need https://trac.sagemath.org/ticket/30949
         tox_env: [homebrew-macos-usrlocal-minimal, homebrew-macos-usrlocal-standard, homebrew-macos-usrlocal-maximal, homebrew-macos-usrlocal-python3_xcode-standard, conda-forge-macos-minimal, conda-forge-macos-standard, conda-forge-macos-maximal]
-        # As of 2021-12, default xcode
-        # - on macos-10.15:               12.4
-        # - on macos-latest (= macos-11): 13.1
-        # https://github.com/actions/virtual-environments/blob/main/images/macos/macos-10.15-Readme.md#xcode
         xcode_version_factor: [default]
-        os: [ macos-10.15, macos-latest ]
+        os: [ macos-11, macos-12 ]
     env:
       TOX_ENV: local-${{ matrix.tox_env }}
       LOCAL_ARTIFACT_NAME: sage-local-commit-${{ github.sha }}-tox-local-${{ matrix.tox_env }}-${{ matrix.os }}-xcode_${{ matrix.xcode_version_factor }}
       LOGS_ARTIFACT_NAME: logs-commit-${{ github.sha }}-tox-local-${{ matrix.tox_env }}--${{ matrix.os }}-xcode_${{ matrix.xcode_version_factor }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Select Xcode version
         run: |
           if [ ${{ matrix.xcode_version_factor }} != default ]; then sudo xcode-select -s /Applications/Xcode_${{ matrix.xcode_version_factor }}.app; fi
       - name: Install test prerequisites
         run: |
           brew install tox
-      - uses: actions/download-artifact@v2
+      - uses: actions/download-artifact@v3
         with:
           path: sage-local-artifact
           name: ${{ env.LOCAL_ARTIFACT_NAME }}
@@ -96,7 +92,7 @@ jobs:
         run: |
           mkdir -p "artifacts/$LOGS_ARTIFACT_NAME"; cp -r .tox/*/log "artifacts/$LOGS_ARTIFACT_NAME"
         if: always()
-      - uses: actions/upload-artifact@v1
+      - uses: actions/upload-artifact@v3
         with:
           path: artifacts
           name: ${{ env.LOGS_ARTIFACT_NAME }}
@@ -114,7 +110,7 @@ jobs:
         run: |
           mkdir -p sage-local-artifact && (cd .tox/$TOX_ENV && rm -f "local/lib64" && tar -cf - $(pwd)) > sage-local-artifact/sage-${{ env.TOX_ENV }}-${{ matrix.stage }}.tar
         if: contains(matrix.stage, '1')
-      - uses: actions/upload-artifact@v2
+      - uses: actions/upload-artifact@v3
         with:
           path: sage-local-artifact/sage-${{ env.TOX_ENV }}-${{ matrix.stage }}.tar
           name: ${{ env.LOCAL_ARTIFACT_NAME }}
@@ -124,7 +120,7 @@ jobs:
 
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
         with:
           fetch-depth: 500
       - name: fetch tags
@@ -144,7 +140,7 @@ jobs:
       - name: make dist
         run: |
           ./configure --enable-download-from-upstream-url && make dist
-      - uses: actions/upload-artifact@v2
+      - uses: actions/upload-artifact@v3
         with:
           path: "dist/*.tar.gz"
           name: dist
@@ -158,29 +154,17 @@ jobs:
       fail-fast: false
       max-parallel: 4
       matrix:
-        os: [ macos-10.15, macos-11.0 ]
-        tox_system_factor: [macos-nobootstrap, macos-nobootstrap-python3_pythonorg]
+        os: [ macos-11, macos-12 ]
+        tox_system_factor: [macos-nobootstrap]
         tox_packages_factor: [minimal]
-        # As of 2021-03, default is 12.4
-        # https://github.com/actions/virtual-environments/blob/main/images/macos/macos-10.15-Readme.md#xcode
         xcode_version_factor: [default]
-        include:
-          # Test xcode 11.7 only on macos-10.15
-          - tox_system_factor: macos-nobootstrap
-            tox_packages_factor: minimal
-            xcode_version_factor: 11.7
-            os: macos-10.15
-          - tox_system_factor: macos-nobootstrap-python3_pythonorg
-            tox_packages_factor: minimal
-            xcode_version_factor: 11.7
-            os: macos-10.15
     env:
       TOX_ENV: local-${{ matrix.tox_system_factor }}-${{ matrix.tox_packages_factor }}
       LOGS_ARTIFACT_NAME: logs-commit-${{ github.sha }}-tox-local-${{ matrix.tox_system_factor }}-${{ matrix.tox_packages_factor }}-xcode_${{ matrix.xcode_version_factor }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
         if: "!contains(matrix.tox_system_factor, 'nobootstrap')"
-      - uses: actions/download-artifact@v2
+      - uses: actions/download-artifact@v3
         with:
           path: .
           name: dist
@@ -198,13 +182,6 @@ jobs:
       - name: Install test prerequisites
         run: |
           sudo /usr/bin/python3 -m pip install tox
-      - name: Install python3 from python.org
-        # As of 2020-03-30 (https://github.com/actions/virtual-environments/blob/master/images/macos/macos-10.15-Readme.md),
-        # Python 3.7.7 is installed on GitHub Actions runners.  But we install our own copy from the python.org binary package.
-        run: |
-          curl -o python3.pkg https://www.python.org/ftp/python/3.7.7/python-3.7.7-macosx10.9.pkg
-          sudo installer -verbose -pkg python3.pkg -target /
-        if: contains(matrix.tox_system_factor, 'python3_pythonorg')
       - name: Build and test with tox
         # We use a high parallelization on purpose in order to catch possible parallelization bugs in the build scripts.
         # For doctesting, we use a lower parallelization to avoid timeouts.
@@ -214,7 +191,7 @@ jobs:
         run: |
           mkdir -p "artifacts/$LOGS_ARTIFACT_NAME"; cp -r .tox/*/log "artifacts/$LOGS_ARTIFACT_NAME"
         if: always()
-      - uses: actions/upload-artifact@v1
+      - uses: actions/upload-artifact@v3
         with:
           path: artifacts
           name: ${{ env.LOGS_ARTIFACT_NAME }}

diff --git a/.github/workflows/ci-wsl.yml b/.github/workflows/ci-wsl.yml
@@ -19,7 +19,7 @@ jobs:
     steps:
     - name: Configure git
       run: git config --global core.symlinks true
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v3
     - name: Install Ubuntu 20.04 (in WSL)
       run: |
         (New-Object System.Net.WebClient).DownloadFile("https://aka.ms/wslubuntu2004", "Ubuntu.appx")
@@ -44,7 +44,7 @@ jobs:
       run: mkdir -p "artifacts/logs"; cp -r .tox/*/log "artifacts/logs"
       shell: bash
       if: always()
-    - uses: actions/upload-artifact@v1
+    - uses: actions/upload-artifact@v3
       with:
         path: artifacts
         name: logs

diff --git a/.github/workflows/cygwin.yml b/.github/workflows/cygwin.yml
@@ -73,14 +73,14 @@ jobs:
         choco install git python39 python39-pip --source cygwin
 
     - name: Check out SageMath
-      uses: actions/checkout@v2
+      uses: actions/checkout@v3
       with:
         repository: ${{ inputs.sage_repo }}
         ref: ${{ inputs.sage_ref }}
         fetch-depth: 2000
 
     - name: Check out git-trac-command
-      uses: actions/checkout@v2
+      uses: actions/checkout@v3
       with:
         repository: sagemath/git-trac-command
         path: git-trac-command
@@ -95,7 +95,7 @@ jobs:
       if: inputs.sage_trac_git != ''
 
     - name: Download upstream artifact
-      uses: actions/download-artifact@v2
+      uses: actions/download-artifact@v3
       with:
         path: upstream
         name: ${{ inputs.upstream_artifact }}
@@ -106,7 +106,7 @@ jobs:
       if: inputs.upstream_artifact
 
     - name: Download sage-local artifact
-      uses: actions/download-artifact@v2
+      uses: actions/download-artifact@v3
       with:
         name: ${{ env.LOCAL_ARTIFACT_NAME }}
         path: C:\\tools\\cygwin\\tmp
@@ -124,7 +124,7 @@ jobs:
       run: |
         C:\\tools\\cygwin\\bin\\bash -l -c 'cd $(cygpath -u "$GITHUB_WORKSPACE") && mkdir -p "artifacts/$LOGS_ARTIFACT_NAME"; for a in "${{ env.SAGE_LOCAL }}"/var/tmp/sage/build/*; do if [ -d "$a" ]; then tar -c --remove-files -f "artifacts/$LOGS_ARTIFACT_NAME/"$(basename "$a")".tar" "$a"; fi; done; cp -r logs/* "artifacts/$LOGS_ARTIFACT_NAME"'
       if: always()
-    - uses: actions/upload-artifact@v2
+    - uses: actions/upload-artifact@v3
       with:
         path: artifacts
         name: ${{ env.LOGS_ARTIFACT_NAME }}
@@ -142,7 +142,7 @@ jobs:
       run: |
         C:\\tools\\cygwin\\bin\\bash -l -c 'cd $(cygpath -u "$GITHUB_WORKSPACE") && rm -f "${{ env.SAGE_LOCAL }}"/lib64; tar -cf /tmp/sage-local-${{ inputs.stage }}.tar --listed-incremental=/tmp/sage-local.snar "${{ env.SAGE_LOCAL }}"'
       if: always()
-    - uses: actions/upload-artifact@v2
+    - uses: actions/upload-artifact@v3
       # upload-artifact@v2 does not support whitespace in file names.
       # so we tar up the directory ourselves
       with:

diff --git a/.github/workflows/dist.yml b/.github/workflows/dist.yml
@@ -18,8 +18,9 @@ jobs:
 
   release_dist:
 
-    # This job, in contrast to "dist" in tox.yml,
-    # does not use "configure --enable-download-from-upstream-url".
+    # This job, in contrast to "dist" in ci-macos.yml,
+    # does not use "configure --enable-download-from-upstream-url"
+    # (the default since #32390).
     #
     # In this way, we check that all necessary package tarballs
     # have already been uploaded to the Sage server at the time
@@ -31,15 +32,15 @@ jobs:
 
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Install bootstrap prerequisites
         run: |
           sudo DEBIAN_FRONTEND=noninteractive apt-get update
           sudo DEBIAN_FRONTEND=noninteractive apt-get install $(build/bin/sage-get-system-packages debian _bootstrap)
       - name: make dist
         run: |
-          ./bootstrap -D && ./configure && make dist
-      - uses: actions/upload-artifact@v2
+          ./bootstrap -D && ./configure --disable-download-from-upstream-url && make dist
+      - uses: actions/upload-artifact@v3
         with:
           path: "dist/*.tar.gz"
           name: release_dist
@@ -50,7 +51,7 @@ jobs:
     env:
       CAN_DEPLOY: ${{ secrets.SAGEMATH_PYPI_API_TOKEN != '' }}
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
       - name: Install bootstrap prerequisites
         run: |
           sudo DEBIAN_FRONTEND=noninteractive apt-get update
@@ -62,7 +63,7 @@ jobs:
           make pypi-sdists V=0
           (mkdir dist && mv upstream/sage*.tar.gz dist/)
           ls -l dist
-      - uses: actions/upload-artifact@v2
+      - uses: actions/upload-artifact@v3
         with:
           path: "dist/*.tar.gz"
           name: dist
@@ -105,9 +106,9 @@ jobs:
       # Use 'build', not 'pip wheel'
       CIBW_BUILD_FRONTEND: build
     steps:
-      - uses: actions/checkout@v2
+      - uses: actions/checkout@v3
 
-      - uses: actions/download-artifact@v2
+      - uses: actions/download-artifact@v3
         with:
           name: dist
           path: dist
@@ -130,7 +131,7 @@ jobs:
               pipx run cibuildwheel==2.7.0 unpacked/$pkg*
           done
 
-      - uses: actions/upload-artifact@v2
+      - uses: actions/upload-artifact@v3
         with:
           name: wheels
           path: ./wheelhouse/*.whl
@@ -142,7 +143,7 @@ jobs:
       CAN_DEPLOY: ${{ secrets.SAGEMATH_PYPI_API_TOKEN != '' }}
     steps:
 
-      - uses: actions/download-artifact@v2
+      - uses: actions/download-artifact@v3
         with:
           name: wheels
           path: wheelhouse