Sage 10.3.beta1 released

[Volker Braun]

As always, you can get the latest beta version from the "develop" git branch. Alternatively, the self-contained source tarball is at http://www.sagemath.org/download-latest.html

ab24b1c3113 ( tag: 10.3.beta1, github/develop) Updated SageMath version to 10.3.beta1
f66d283d487 gh-36746: pep8 in various interfaces
ca0624a1471 gh-36745: pep8 for axiom and sympy interfaces
dea7789fc96 gh-36744: pep8 for maxima-lib interface
abb1a51f962 gh-36743: Normal Python packages: postpone wheel installation to the post-install phase
46b03d5abd6 gh-36742: Plant anchors for hunks to create links in doc preview changes
2af59813c27 gh-36739: ⬆️ Bump actions/github-script from 6.4.0 to 7.0.1
03fc8217f84 gh-36738: `build/bin/sage-spkg`: Add options for checking, cleaning separately from build/install
7cc2a4b5191 gh-36736: avoid importing `DiGraph` from `sage.graphs.graph`
fc591d308fe gh-36733: `meson_python` 0.15
80f0ea56f12 gh-36732: build/pkgs/pari: require pari-2.5.14, drop tests for patched v2.5.13
9938ca99bc7 gh-36728: cython-lint for graphs/
27dc76a890f gh-36724: Compute dimensions of simple symmetric group modules over positive characteristic
5b1eea4ae6c gh-36718: Adding cellular bases for the SymmetricGroupAlgebra over general fields
d4d5015f1fd gh-36716: Free space and repeatability for the Docker Hub workflow
76266d5884c gh-36715: build/bin/sage-logger [V=0]: Show more lines of the log of failing builds
8fb03324a9b gh-36714: Deploy live doc preview with pdf docs
9ea7d743a25 gh-36709: get rid of coerce_try
d6280021f5b gh-36705: add method to compute the length of a tree-decomposition
deb867c2bcb gh-36704: convert Tate algebra to use Parent and category
03487a133aa gh-36703: make modform rings for triangle groups use Algebras
03a6e35be87 gh-36701: some details in combinations
66e139d40b8 gh-36700: use less _element_constructor
c4513827479 gh-36697: CI Linux incremental: Set max_parallel = 8, reduce standard-sitepackages platforms
5021c6049ff gh-36695: Dark Mode Compatibility: Improved Crystals Visibility
d98153daa60 gh-36691: Implement twisted homology of simplicial sets.
afdac6314c3 gh-36689: less use of _an_element_impl
79598d3d41d gh-36687: Codestyle improvements (mostly sort imports)
1e50484dbfc gh-36686: `.ci/merge-fixes.sh`: Obtain patches via URL, make customizable by repository variable
b8daad83eb8 gh-36684: get rid of some ParentWithGens in real and complex fields
fd7e0bd4536 gh-36683: refresh the file plural.pyx
168719b64c8 gh-36682: `src/sage/graphs`: some care with `# optional`
e204ca89ec2 gh-36679: `src/doc`: Update `# needs`
e37e94de106 gh-36677: symengine and symengine_py 0.11
edc7e02eeae gh-36673: capitals to Hopf, Lie, Coxeter by appropriate mechanism
a45062c8f54 gh-36666: Replace relative imports by absolute ones in `sage.{algebras,arith,categories,cpython,data_structures,misc,modular,rings,sat,symbolic}`
20518005e64 gh-36665: implement Bröker's algorithm for constructing supersingular curves
067b4b3e2a0 gh-36656: `sage.interfaces`: Update `# needs`
37a250141f6 gh-36645: `sage.libs.pari`, `sage.rings.real_mpfr`: Modularization fixes
d15e490e145 gh-36564: `pkgs/sagemath-{bliss,coxeter3,...}`: Move metadata from `setup.cfg` to `pyproject.toml`
272582be9e0 (tag: 10.3.beta0) Updated SageMath version to 10.3.beta0

[Antonio Rojas]

On my distro, sagelib-only build, the new file 'src/sage/libs/pari/convert_sage_matrix.pyx' is not being cythonized or built. This causes major breakage, with many

> ModuleNotFoundError: No module named 'sage.libs.pari.convert_sage_matrix'

errors. The first line of the file

# sage_setup: distribution = sagemath-pari

looks suspicious. Is 'sagemath-pari' actually a thing? I can't find any other mention to it in the sage source.

[Matthias Köppe]

Fixed in https://github.com/sagemath/sage/pull/36859

[Matthias Köppe]

On Monday, December 11, 2023 at 7:59:38 AM UTC-8 Antonio Rojas wrote:

Is 'sagemath-pari' actually a thing? I can't find any other mention to it in the sage source.

Not yet. https://github.com/sagemath/sage/pull/35095 adds it.

 

[Gonzalo Tornaría]

See: https://github.com/sagemath/sage/pull/36859

Volker, it would be appreciated if you include this in beta2.

Is it possible that your merge script somehow takes priority into account, not just pr number?

Having a broken release is inconvenient for development.

Best,

Gonzalo

[tsc...@ucdavis.edu]

I am having an issue building e_antic that was not present for building 10.2 from source. I've included the log file below. I first tried without installing anything extra and then with a system libantic installation. Both resulted in the same log file.

Best,

Travis

Using cached file /home/travis/sage-build/upstream/e-antic-1.3.0.tar.gz
e_antic-1.3.0
====================================================
Setting up build directory for e_antic-1.3.0
Finished extraction
No patch files found in ../patches
****************************************************
Host system:
Linux tscrim 6.2.0-37-generic #38~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Thu Nov  2 18:01:13 UTC 2 x86_64 x86_64 x86_64 GNU/Linux
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/11/lto-wrapper
OFFLOAD_TARGET_NAMES=nvptx-none:amdgcn-amdhsa
OFFLOAD_TARGET_DEFAULT=1
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Ubuntu 11.4.0-1ubuntu1~22.04' --with-bugurl=file:///usr/share/doc/gcc-11/README.Bugs --enable-languages=c,ada,c++,go,brig,d,fortran,objc,obj-c++,m2 --prefix=/usr --with-gcc-major-version-only --program-suffix=-11 --program-prefix=x86_64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --disable-werror --enable-cet --with-arch-32=i686 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-offload-targets=nvptx-none=/build/gcc-11-XeT9lY/gcc-11-11.4.0/debian/tmp-nvptx/usr,amdgcn-amdhsa=/build/gcc-11-XeT9lY/gcc-11-11.4.0/debian/tmp-gcn/usr --without-cuda-driver --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 11.4.0 (Ubuntu 11.4.0-1ubuntu1~22.04)
****************************************************
Package 'e_antic' is currently not installed
No legacy uninstaller found for 'e_antic'; nothing to do
Configuring e_antic-1.3.0
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
=== configuring in libeantic (/home/travis/sage-build/local/var/tmp/sage/build/e_antic-1.3.0/src/libeantic)
configure: running /usr/bin/bash ./configure --disable-option-checking '--prefix=/home/travis/sage-build/local'  '--libdir=/home/travis/sage-build/local/lib' '--disable-static' '--disable-maintainer-mode' '--disable-dependency-tracking' '--without-byexample' '--without-doc' '--without-benchmark' '--without-pyeantic' --cache-file=/dev/null --srcdir=.
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking whether make supports nested variables... (cached) yes
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking how to print strings... printf
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... ld
checking if the linker (ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop
checking for ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for mt... mt
checking if mt is a manifest tool... no
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking whether the compiler supports GNU C++... yes
checking whether g++ -std=gnu++11 accepts -g... yes
checking for g++ -std=gnu++11 option to enable C++11 features... none needed
checking dependency style of g++ -std=gnu++11... none
checking how to run the C++ preprocessor... g++ -std=gnu++11 -E
checking for ld used by g++ -std=gnu++11... ld -m elf_x86_64
checking if the linker (ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ -std=gnu++11 linker (ld -m elf_x86_64) supports shared libraries... yes
checking for g++ -std=gnu++11 option to produce PIC... -fPIC -DPIC
checking if g++ -std=gnu++11 PIC flag -fPIC -DPIC works... yes
checking if g++ -std=gnu++11 static flag -static works... yes
checking if g++ -std=gnu++11 supports -c -o file.o... yes
checking if g++ -std=gnu++11 supports -c -o file.o... (cached) yes
checking whether the g++ -std=gnu++11 linker (ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for valgrind... no
checking for gmp.h... yes
checking for __gmpz_add in -lgmp... yes
checking for mpfr_init in -lmpfr... yes
checking for flint/flint.h... yes
checking for flint/fmpz.h... yes
checking for flint/fmpq.h... yes
checking for fmpz_init in -lflint... yes
checking for antic/nf.h... no
configure: error: antic headers not found
configure: error: ./configure failed for libeantic
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
=== configuring in libeantic (/home/travis/sage-build/local/var/tmp/sage/build/e_antic-1.3.0/src/libeantic)
configure: running /usr/bin/bash ./configure --disable-option-checking '--prefix=/home/travis/sage-build/local'  '--libdir=/home/travis/sage-build/local/lib' '--disable-static' '--without-byexample' '--without-doc' '--without-benchmark' '--without-pyeantic' --cache-file=/dev/null --srcdir=.
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking how to create a pax tar archive... gnutar
checking whether make supports nested variables... (cached) yes
checking build system type... x86_64-pc-linux-gnu
checking host system type... x86_64-pc-linux-gnu
checking how to print strings... printf
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... gcc3
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking for ld used by gcc... ld
checking if the linker (ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop
checking for ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for mt... mt
checking if mt is a manifest tool... no
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... no
checking whether the compiler supports GNU C++... yes
checking whether g++ -std=gnu++11 accepts -g... yes
checking for g++ -std=gnu++11 option to enable C++11 features... none needed
checking dependency style of g++ -std=gnu++11... gcc3
checking how to run the C++ preprocessor... g++ -std=gnu++11 -E
checking for ld used by g++ -std=gnu++11... ld -m elf_x86_64
checking if the linker (ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ -std=gnu++11 linker (ld -m elf_x86_64) supports shared libraries... yes
checking for g++ -std=gnu++11 option to produce PIC... -fPIC -DPIC
checking if g++ -std=gnu++11 PIC flag -fPIC -DPIC works... yes
checking if g++ -std=gnu++11 static flag -static works... yes
checking if g++ -std=gnu++11 supports -c -o file.o... yes
checking if g++ -std=gnu++11 supports -c -o file.o... (cached) yes
checking whether the g++ -std=gnu++11 linker (ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for valgrind... no
checking for gmp.h... yes
checking for __gmpz_add in -lgmp... yes
checking for mpfr_init in -lmpfr... yes
checking for flint/flint.h... yes
checking for flint/fmpz.h... yes
checking for flint/fmpq.h... yes
checking for fmpz_init in -lflint... yes
checking for antic/nf.h... no
configure: error: antic headers not found
configure: error: ./configure failed for libeantic
********************************************************************************
Error configuring e_antic-1.3.0
See the file
    /home/travis/sage-build/local/var/tmp/sage/build/e_antic-1.3.0/src/config.log
for details.
********************************************************************************

real 0m7.381s
user 0m4.006s
sys 0m1.985s
************************************************************************
Error installing package e_antic-1.3.0
************************************************************************
Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the log files
  /home/travis/sage-build/logs/pkgs/e_antic-1.3.0.log
and
  /home/travis/sage-build/config.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/home/travis/sage-build/local/var/tmp/sage/build/e_antic-1.3.0 and type 'make' or whatever is appropriate.
Instead, the following commands setup all environment variables
correctly and load a subshell for you to debug the error:
  (cd '/home/travis/sage-build/local/var/tmp/sage/build/e_antic-1.3.0' && '/home/travis/sage-build/sage' --buildsh)
When you are done debugging, you can type "exit" to leave the subshell.
************************************************************************

[Antonio Rojas]

e-antic doesn't support flint 3 yet

https://github.com/sagemath/sage/pull/35848#issuecomment-1841661819

https://github.com/flatsurf/e-antic/pull/264

[Eric Gourgoulhon]

Thanks for the release.

On Ubuntu 22.04 running on Xeon E5-2623 + 16 GB RAM:
- parallel build (-j16) from a fresh git clone + pull develop, with system python (3.10.12): OK
- make ptestlong gave a single error:

sage -t --long --random-seed=676542016572831857751872562668780748 src/sage/numerical/backends/logging_backend.py  # Killed due to abort

The test is passed when run standalone.

The same error (maybe a race issue) has been reported previously for Sage 9.6.beta2:

https://groups.google.com/g/sage-release/c/vxYHQA6LUGw/m/0sfDdPnECAAJ

https://groups.google.com/g/sage-release/c/vxYHQA6LUGw/m/GXGFksByAQAJ

Eric.

[Vincent Delecroix]

e-antic is indeed not compatible (yet) with flint-3.0.0, see
https://github.com/flatsurf/e-antic/issues/263

> --
> You received this message because you are subscribed to the Google Groups "sage-release" group.
> To unsubscribe from this group and stop receiving emails from it, send an email to sage-release...@googlegroups.com.
> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/9e11b785-5a63-496d-83d8-bc8a4b88435dn%40googlegroups.com.

[tsc...@ucdavis.edu]

As indicated on the e-antic PR, this prevents normaliz from working. So this is blocking a number of optional packages, and it would be great if this could be resolved quickly.

Best,

Travis

[Emmanuel Charpentier]

[Emmanuel Charpentier]

Missing text of the previous message, (mysteriously missing...) :

On Debian testing running on core i7 + 16 GB RAM, upgrading 10.2.rc4 to 10.3.beta1 and running ptestlong gives a non-negligible list of permanent failures :

```

----------------------------------------------------------------------

sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/sage/matrix/matrix2.pyx # 2 doctests failed sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/sage/numerical/sdp.pyx # 34 doctests failed

sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/sage/numerical/backends/cvxopt_sdp_backend.pyx # 21 doctests failed sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/sage/numerical/backends/cvxopt_backend.pyx # 17 doctests failed

sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/sage/matrix/matrix_double_sparse.pyx # 9 doctests failed

sage -t --long --warn-long 210.3 --random-seed=243965959964229696435756084107657160315 src/doc/en/thematic_tutorials/numerical_sage/cvxopt.rst # 2 doctests failed

----------------------------------------------------------------------

```

All seem to be related to a missing cvxopt library (logs and config enclosed).

Any hint welcome !

Le mercredi 13 décembre 2023 à 18:39:00 UTC+1, Emmanuel Charpentier a écrit :

[Emmanuel Charpentier]

Forcing the reinstallation of cvxopt (sage -f cvxopt ; make -j8) allowed all the failed tests to pass without failure.

I still do not have any explanation for the initial cvxopt failure…

HTH,

​