Merge branch 'sagemath:develop' into ZetaFunctions

.github/workflows/ci-linux.yml

@@ -118,7 +118,6 @@ jobs:
          "linuxmint-21.2",
          "fedora-38",
          "fedora-39",
-         "centos-stream-8-python3.9",
          "centos-stream-9-python3.9",
          "almalinux-8-python3.9",
          "gentoo-python3.10",

.github/workflows/doc-build.yml

@@ -130,10 +130,10 @@ jobs:
           new_version=$(docker exec BUILD cat src/VERSION.txt)
           mkdir -p docs/
           docker cp BUILD:/sage/local/share/doc/sage/html docs/
-          # Wipe out chronic diffs between old doc and new doc
+          # Wipe out chronic diffs of old doc against new doc
           (cd docs && \
            find . -name "*.html" | xargs sed -i -e '/class="sidebar-brand-text"/ s/Sage [0-9a-z.]* /Sage '"$new_version"' /' \
-                                                -e '/This is documentation for/ s/ built with GitHub PR [^.]*././' \
+                                                -e '/<link rel="stylesheet"/ s/?v=[0-9a-f]*"/"/' \
                                                 -e 's;'"$mathjax_path_from"';'"$mathjax_path_to"';' \
                                                 -e '\;<script type="application/vnd\.jupyter\.widget-state+json">;,\;</script>; d')
           # Create git repo from old doc
@@ -166,7 +166,13 @@ jobs:
           docker cp BUILD:/sage/local/share/doc/sage/html docs
           docker cp BUILD:/sage/local/share/doc/sage/index.html docs
           (cd docs && git commit -a -m 'new')
+          # Wipe out chronic diffs of new doc against old doc
+          (cd docs && \
+           find . -name "*.html" | xargs sed -i -e '/This is documentation for/ s/ built with GitHub PR .*. Doc/. Doc/' \
+                                                -e '/<link rel="stylesheet"/ s/?v=[0-9a-f]*"/"/')
           .ci/create-changes-html.sh $(cd docs && git rev-parse HEAD^) docs
+          # Restore the new doc from changes by "wipe out"
+          (cd docs && git checkout -f)
           (cd docs && rm -rf .git)
           mv CHANGES.html docs
           # We also need to replace the symlinks because netlify is not following them
@@ -176,15 +182,25 @@ jobs:
           zip -r docs.zip docs
 
       - name: Upload docs
+        id: upload
         if: (success() || failure()) && steps.copy.outcome == 'success'
         uses: actions/upload-artifact@v3
         with:
           name: docs
           path: docs.zip
 
+      - name: Save space
+        id: savespace
+        if: (success() || failure()) && steps.upload.outcome == 'success' && github.repository == 'sagemath/sage' && github.ref == 'refs/heads/develop'
+        run: |
+          set -ex
+          # Save space on runner device before we start to build livedoc
+          rm -rf docs/
+          rm -f docs.zip
+
       - name: Build live doc
         id: buildlivedoc
-        if: (success() || failure()) && steps.copy.outcome == 'success' && github.repository == 'sagemath/sage' && github.ref == 'refs/heads/develop'
+        if: (success() || failure()) && steps.savespace.outcome == 'success'
         run: |
           export MAKE="make -j5 --output-sync=recurse" SAGE_NUM_THREADS=5
           export PATH="build/bin:$PATH"
@@ -203,11 +219,11 @@ jobs:
         if: (success() || failure()) && steps.buildlivedoc.outcome == 'success'
         run: |
           mkdir -p ./livedoc
-          cp -r -L /sage/local/share/doc/sage/html ./livedoc
-          cp -r -L /sage/local/share/doc/sage/pdf ./livedoc
-          cp  /sage/local/share/doc/sage/index.html ./livedoc
+          # We copy everything to a local folder
+          docker cp --follow-link BUILD:/sage/local/share/doc/sage/html livedoc
+          docker cp --follow-link BUILD:/sage/local/share/doc/sage/pdf livedoc
+          docker cp BUILD:/sage/local/share/doc/sage/index.html livedoc
           zip -r livedoc.zip livedoc
-        shell: sh .ci/docker-exec-script.sh BUILD . {0}
 
       - name: Upload live doc
         if: (success() || failure()) && steps.copylivedoc.outcome == 'success'

.github/workflows/docker.yml

@@ -48,7 +48,6 @@ on:
            "fedora-39",
            "fedora-40",
            "centos-7-devtoolset-gcc_11",
-           "centos-stream-8-python3.9",
            "centos-stream-9-python3.9",
            "almalinux-8-python3.9",
            "almalinux-9-python3.11",

.github/workflows/lint.yml

@@ -28,14 +28,12 @@ jobs:
         GH_TOKEN: ${{ github.token }}
         SAGE_CI_FIXES_FROM_REPOSITORIES: ${{ vars.SAGE_CI_FIXES_FROM_REPOSITORIES }}
 
-    - name: Set up Python
-      uses: actions/setup-python@v5
-      with:
-        python-version: 3.9
-
-    - name: Install dependencies
+    - name: Install test prerequisites
       id: deps
-      run: pip install tox
+      # From docker.yml
+      run: |
+        sudo DEBIAN_FRONTEND=noninteractive apt-get update
+        sudo DEBIAN_FRONTEND=noninteractive apt-get install tox
 
     - name: Code style check with ruff-minimal
       if: (success() || failure()) && steps.deps.outcome == 'success'

CITATION.cff

@@ -4,8 +4,8 @@ title: SageMath
 abstract: SageMath is a free open-source mathematics software system.
 authors:
 - name: "The SageMath Developers"
-version: 10.4.beta9
+version: 10.4.rc0
 doi: 10.5281/zenodo.8042260
-date-released: 2024-06-09
+date-released: 2024-06-22
 repository-code: "https://github.com/sagemath/sage"
 url: "https://www.sagemath.org/"

VERSION.txt

@@ -1 +1 @@
-SageMath version 10.4.beta9, Release Date: 2024-06-09
+SageMath version 10.4.rc0, Release Date: 2024-06-22

bootstrap

@@ -29,9 +29,7 @@ cd "$SAGE_ROOT"
 
 export PATH="$SAGE_ROOT/build/bin:$PATH"
 
-PKG=build/pkgs/configure
 MAKE="${MAKE:-make}"
-CONFVERSION=$(cat $PKG/package-version.txt)
 
 
 bootstrap () {
@@ -54,6 +52,7 @@ bootstrap () {
     for a in m4/sage_spkg_versions.m4 m4/sage_spkg_versions_toml.m4; do
         echo 'changequote(`>>>'"'"', `<<<'"')dnl" >> $a
     done
+    eval $(sage-package properties --format=shell :all:)
     spkg_configures=""
     # initialize SAGE_ENABLE... options for standard packages
     for pkgname in $(sage-package list :standard:); do
@@ -62,75 +61,67 @@ AS_VAR_SET_IF([SAGE_ENABLE_$pkgname], [], [AS_VAR_SET([SAGE_ENABLE_$pkgname], [y
     done
     # --enable-SPKG options
     for pkgname in $(sage-package list :optional: :experimental:); do
+        eval DIR=\$path_$pkgname pkgtype=\$type_$pkgname pkgsource=\$source_$pkgname
+        case "$pkgname:$pkgsource" in
+            *:pip)
                 # Issue #29629: Temporary solution for Sage 9.1: Do not provide
                 # --enable-SPKG options for installing pip packages
-                if [ ! -f build/pkgs/$pkgname/requirements.txt ]; then
-                    pkgtype="$(cat build/pkgs/$pkgname/type)"
-                    # Issue #29124: Do not provide --enable-_recommended and similar
-                    case "$pkgname" in
-                        _*) ;;
-                        *)  spkg_configures="$spkg_configures
+                ;;
+            _*:*)
+                # Issue #29124: Do not provide --enable-_recommended and similar
+                ;;
+            *:none)
+                # Issue #31163: Just an optional dummy package
+                spkg_configures="$spkg_configures
 AC_SUBST(SAGE_ENABLE_$pkgname, [if_installed])"
-                            if [ -f build/pkgs/$pkgname/spkg-install -o -f build/pkgs/$pkgname/spkg-install.in ]; then
-                                # Issue #31163: Not just an optional dummy package
-                                spkg_configures="$spkg_configures
-SAGE_SPKG_ENABLE([$pkgname], [$pkgtype], [$(grep -v ^= build/pkgs/$pkgname/SPKG.rst | head -n1 2>/dev/null || echo $pkgname)])"
-                            fi
-                            ;;
-                    esac
-                fi
+                ;;
+            *:*)
+                spkg_configures="$spkg_configures
+AC_SUBST(SAGE_ENABLE_$pkgname, [if_installed])"
+                spkg_configures="$spkg_configures
+SAGE_SPKG_ENABLE([$pkgname], [$pkgtype], [$(grep -v ^= "$DIR/SPKG.rst" | head -n1 2>/dev/null || echo $pkgname)])"
+                ;;
+        esac
     done
+    cat >> m4/sage_spkg_configures.m4 <<EOF
+SAGE_SPKG_COLLECT_INIT([$(echo $(sage-package list))])
+EOF
     for pkgname in $(sage-package list --has-file spkg-configure.m4); do
-        echo "m4_sinclude([build/pkgs/$pkgname/spkg-configure.m4])"
+        eval DIR=\$path_$pkgname
+        echo "m4_sinclude([$DIR/spkg-configure.m4])"
         config="SAGE_SPKG_CONFIGURE_$(echo ${pkgname} | tr '[a-z]' '[A-Z]')"
-        if grep -q SAGE_PYTHON_PACKAGE_CHECK build/pkgs/$pkgname/spkg-configure.m4; then
+        if grep -q SAGE_PYTHON_PACKAGE_CHECK "$DIR/spkg-configure.m4"; then
             spkg_configures_python="$spkg_configures_python
 $config"
         else
             spkg_configures="$spkg_configures
 $config"
         fi
     done >> m4/sage_spkg_configures.m4
-    cat >> m4/sage_spkg_configures.m4 <<EOF
-$spkg_configures
-$spkg_configures_python
-EOF
     for pkgname in $(sage-package list); do
-        DIR=build/pkgs/$pkgname
-        pkgtype="$(cat $DIR/type)"
-        if test -f "$DIR/requirements.txt"; then
-            SPKG_SOURCE=pip
-        elif test ! -f "$DIR/checksums.ini"; then
-            if test -f "$DIR/spkg-install" -o -f "$DIR/spkg-install.in"; then
-                SPKG_SOURCE=script
-            else
-                # a dummy package
-                SPKG_SOURCE=none
-            fi
-        else
-            SPKG_SOURCE=normal
-        fi
-        if test -f "$DIR/trees.txt"; then
-            SPKG_TREE_VAR="$(sed "s/#.*//;" "$DIR/trees.txt")"
-        else
-            SPKG_TREE_VAR=SAGE_LOCAL
-            if test -f "$DIR/requirements.txt" -o -f "$DIR/version_requirements.txt"; then
-                # A Python package
-                SPKG_TREE_VAR=SAGE_VENV
-                echo "define(>>>SPKG_INSTALL_REQUIRES_${pkgname}<<<, >>>$(echo $(sage-get-system-packages install-requires ${pkgname}))<<<)dnl" >> m4/sage_spkg_versions.m4
-                echo "define(>>>SPKG_INSTALL_REQUIRES_${pkgname}<<<, >>>$(echo $(sage-get-system-packages install-requires-toml ${pkgname}))<<<)dnl" >> m4/sage_spkg_versions_toml.m4
-            fi
+        eval DIR=\$path_$pkgname pkgtype=\$type_$pkgname SPKG_SOURCE=\$source_$pkgname SPKG_TREE_VAR=\$trees_$pkgname
+        if test -f "$DIR/requirements.txt" -o -f "$DIR/version_requirements.txt"; then
+            # A Python package
+            echo "define(>>>SPKG_INSTALL_REQUIRES_${pkgname}<<<, >>>$(echo $(sage-get-system-packages install-requires ${pkgname}))<<<)dnl" >> m4/sage_spkg_versions.m4
+            INSTALL_REQUIRES_TOML=
+            echo "define(>>>SPKG_INSTALL_REQUIRES_${pkgname}<<<, >>>$(echo $(sage-get-system-packages install-requires-toml ${pkgname}))<<<)dnl" >> m4/sage_spkg_versions_toml.m4
+            echo "m4_define([SPKG_INSTALL_REQUIRES_${pkgname}], [[$(echo $(sage-get-system-packages install-requires-toml ${pkgname} | sed 's/"/\\"/g'))]])dnl" >> m4/sage_spkg_configures.m4
         fi
         spkg_finalizes="$spkg_finalizes
 SAGE_SPKG_FINALIZE([$pkgname], [$pkgtype], [$SPKG_SOURCE], [$SPKG_TREE_VAR])"
     done
-    echo "$spkg_finalizes" >> m4/sage_spkg_configures.m4
     for a in m4/sage_spkg_versions.m4 m4/sage_spkg_versions_toml.m4; do
         echo 'changequote(>>>`<<<, >>>'"'"'<<<)dnl' >> $a
     done
+    cat >> m4/sage_spkg_configures.m4 <<EOF
+$spkg_configures
+$spkg_configures_python
+$spkg_finalizes
+EOF
 
     for pkgname in $(sage-package list --has-file bootstrap "$@"); do
-        (cd build/pkgs/$pkgname && if [ -x bootstrap ]; then ./bootstrap; else echo >&2 "bootstrap:$LINENO: Nothing to do for $pkgname"; fi) || exit 1
+        eval DIR=\$path_$pkgname
+        (cd "$DIR" && if [ -x bootstrap ]; then ./bootstrap; else echo >&2 "bootstrap:$LINENO: Nothing to do for $pkgname"; fi) || exit 1
     done
 
     if [ $# != 0 ]; then
@@ -196,10 +187,10 @@ SAGE_SPKG_FINALIZE([$pkgname], [$pkgtype], [$SPKG_SOURCE], [$SPKG_TREE_VAR])"
 bootstrap_download () {
     SAGE_DL_LOGLEVEL=""
     [ "${BOOTSTRAP_QUIET}" = "yes" ] && SAGE_DL_LOGLEVEL="--log=WARNING"
-    sage-download-file ${SAGE_DL_LOGLEVEL} configure-$CONFVERSION.tar.gz
 
+    CONFBALL=$(sage-package download $SAGE_DL_LOGLEVEL configure)
     if [ $? -ne 0 ]; then
-        echo >&2 "Error: downloading configure-$CONFVERSION.tar.gz failed"
+        echo >&2 "Error: downloading configure tarball failed"
         exit 1
     fi
 
@@ -255,16 +246,8 @@ save () {
 	build/pkgs/setuptools/version_requirements.txt \
 	build/pkgs/wheel/version_requirements.txt
 
-    # Update version
-    echo "$NEWCONFVERSION" >$PKG/package-version.txt
-
-    # Compute checksum
-    if [ "${BOOTSTRAP_QUIET}" = "no" ]; then
-	sage-package fix-checksum configure
-    else
-	# Hide the "Updating checksum..." message
-	sage-package fix-checksum configure > /dev/null
-    fi
+    # Update version; this re-computes the checksum
+    sage-package update configure "$NEWCONFVERSION"
 }
 
 
@@ -304,7 +287,6 @@ do
 done
 shift $(($OPTIND - 1))
 export BOOTSTRAP_QUIET
-CONFBALL="upstream/configure-$CONFVERSION.tar.gz"
 
 if [ $DOWNLOAD$SAVE = yesyes ]; then
     echo >&2 "$0: refusing to download and save."
@@ -331,15 +313,16 @@ mkdir -p config 2>/dev/null
 
 if [ $ALWAYSDOWNLOAD = yes ]; then
     if [ -n "$CONFTARBALL_URL" ]; then
-        URL="$CONFTARBALL_URL"/configure-$CONFVERSION.tar.gz
+        CONFTARBALL=$(sage-package tarball configure)
+        URL="$CONFTARBALL_URL"/"$CONFTARBALL"
         SAGE_DL_LOGLEVEL=""
         [ "${BOOTSTRAP_QUIET}" = "yes" ] && SAGE_DL_LOGLEVEL="--log=WARNING"
-        sage-download-file ${SAGE_DL_LOGLEVEL} "$URL" upstream/configure-$CONFVERSION.tar.gz
+        sage-download-file ${SAGE_DL_LOGLEVEL} "$URL" upstream/"$CONFTARBALL"
         if [ $? -ne 0 ]; then
-            echo >&2 "Error: downloading configure-$CONFVERSION.tar.gz from $CONFTARBALL_URL failed"
+            echo >&2 "Error: downloading $CONFTARBALL from $CONFTARBALL_URL failed"
             exit 1
         fi
-        echo >&2 "Downloaded configure-$CONFVERSION.tar.gz from $CONFTARBALL_URL "
+        echo >&2 "Downloaded $CONFTARBALL from $CONFTARBALL_URL "
     else
         bootstrap_download || exit $?
     fi

bootstrap-conda

@@ -18,10 +18,11 @@ SAGELIB_PACKAGES=
 SAGELIB_OPTIONAL_PACKAGES=
 DEVELOP_PACKAGES=
 
+eval $(sage-package properties --format=shell :all:)
+
 for PKG_BASE in $(sage-package list --has-file distros/conda.txt --exclude _sagemath); do
-    PKG_SCRIPTS=build/pkgs/$PKG_BASE
+    eval PKG_SCRIPTS=\$path_$PKG_BASE PKG_TYPE=\$type_$PKG_BASE
     SYSTEM_PACKAGES_FILE=$PKG_SCRIPTS/distros/conda.txt
-    PKG_TYPE=$(cat $PKG_SCRIPTS/type)
     PKG_SYSTEM_PACKAGES=$(echo $(${STRIP_COMMENTS} $SYSTEM_PACKAGES_FILE))
     if [ -n "$PKG_SYSTEM_PACKAGES" ]; then
         if [ -f $PKG_SCRIPTS/spkg-configure.m4 ]; then
@@ -133,12 +134,11 @@ echo >&2 $0:$LINENO: generate conda environment files
         echo >&4 "  - pip:"
         echo >&5 "  - pip:"
         for PKG_BASE in $(sage-package list :standard: :optional: --has-file requirements.txt --no-file distros/conda.txt --no-file src; sage-package list :standard: :optional: --has-file version_requirements.txt --no-file requirements.txt --no-file distros/conda.txt --no-file src); do
-            PKG_SCRIPTS=build/pkgs/$PKG_BASE
+            eval PKG_SCRIPTS=\$path_$PKG_BASE PKG_TYPE=\$type_$PKG_BASE
             SYSTEM_PACKAGES_FILE=$PKG_SCRIPTS/requirements.txt
             if [ ! -f $SYSTEM_PACKAGES_FILE ]; then
                 SYSTEM_PACKAGES_FILE=$PKG_SCRIPTS/version_requirements.txt
             fi
-            PKG_TYPE=$(cat $PKG_SCRIPTS/type)
             if grep -q SAGERUNTIME $PKG_SCRIPTS/dependencies $PKG_SCRIPTS/dependencies_order_only 2>/dev/null; then
                 : # cannot install packages that depend on the Sage library
             else