Sage 9.3.beta0 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 

2c87dc16f2 (tag: 9.3.beta0, trac/develop) Updated SageMath version to 9.3.beta0

f1e5538726 Trac #30806: refresh the ring of Schubert polynomials

a0ed87e05c Trac #30802: build/bin/write-dockerfile.sh: Do not fail with "build/pkgs/SPKG/type: No such file or directory"

b3742db124 Trac #30799: Add Folder for Manifold Examples

5f8941ff4f Trac #30798: fixing low_degree and degree documentation for symbolic expressions

2c3627aee1 Trac #30797: Bug in modular sqrt when extend is False and all is True

d138a96310 Trac #30791: Upgrade: OpenSSL 1.1.1h

8697200598 Trac #30785: tox.ini: Add gentoo-python3.9

67d812a384 Trac #30783: Sage thinks that I^(2/3) = -1

257a9b5677 Trac #30779: Duplicate src/setup.py

28037b8f1d Trac #30775: flake8 refresh for species/species.py

72383e4929 Trac #30774: use iterators inside call of .join for strings

b71767ce20 Trac #30771: Repair self-containedness of the wrapped spkg-install scripts for Python packages

50dae5f04c Trac #30769: Unify graph backends

b709eda5b7 Trac #30759: allow double-sided limit from sympy

2292d96d02 Trac #30756: flake8 details in matroids

96d72df03a Trac #30754: refresh Cfinite sequences

fa4ad137f1 Trac #30743: fix warnings and breaking conditions for neighbor method

4a89f7abd4 Trac #30742: add giac algo for limits

3b8797ebf6 Trac #30736: replacing insecure git:// with secure https://

e11372ba46 Trac #30732: combinat : changes about != empty list

9b8169f5d8 Trac #30718: build/pkgs/pynac/dependencies: Remove giac

fbbb45c16a Trac #30599: Define a new data structure for a list of combinatorial faces

7bc03473be Trac #30349: Downgrade broken optional packages to experimental for Sage 9.2

7ce6353e30 Trac #30730: More random failures in src/sage/interfaces/psage.py

7272e09fe6 Trac #30705: GH Actions: local-macos-nohomebrew - use sudo

e44f7a099b Trac #30700: enhanced maple parser

bb2b46a948 Trac #30689: make formatting doctests more lenient (follow-up to #30515)

1b34ae5370 Trac #30681: Fast Pfaffian using Faddeev-LeVerrier

c87746f50b Trac #30679: fix valuation of Puiseux series

104a3462e6 Trac #30672: Remove `sage/ext` from `sage_include_directories`

0e464c2c5f Trac #30670: full flake8 for lfunctions

5c5f9b5aa8 Trac #30669: Remove ambiguous conversions for fqf_orthogonal groups

66131e0ced Trac #30667: allow construction of empty signed permutation

fa3b68ef1d Trac #30665: Optimize edge iterator for graphs

e124cc1eb0 Trac #30656: build/bin/sage-spkg-info: Fix up /bin/sh-ification

08a5f846be Trac #30655: power series sqrt : one bug

44d4a4b152 Trac #30652: Use Arb to evaluate polynomials with integer/rational coefficients at balls

e20c8b5cbb Trac #30636: failing doctest with optional tag octave

1f0db5f066 Trac #30598: Define a new data structure for a combinatorial face

cb017f813b Trac #30460: Star-Insertion

96caebb74a Trac #28711: Fix spkg-install of p_group_cohomology

08dfeffd34 Trac #28019: If system mpir is found, yasm should not  be built

51a5689ea1 Trac #27310: provide translation of multiple diff

1bed401ee4 Trac #25825: Move cremona db to features

f4f4fcbe62 Trac #24483: complex_field.py complex_number.pyx -> complex_mpfr.pyx

5c61ed0b14 Trac #23726: Find roots of polynomials in subrings of the base ring by filtering

c1b3bdd17e Trac #12529: libsingular reduces polynomials incompletely

e6fc19b4a5 Trac #30734: slackware-minimal: system package fix

7a0b954b17 Trac #30729: Fix gap_packages for Xcode 12

da1da0c8f3 Trac #30720: Fix gap_packages for gcc 10

4a57ff3786 Trac #30703: Fix libnauty spkg-configure.m4

85cd2df36d Trac #30588: singular: Remove python dependency, configure --without-python (singular only supports python2)

9c1eef8986 Trac #30472: Change remaining all-caps SAGE to Sage

fe238b0991 Trac #29557: Add script package _recommended and generate "recommended system packages" info

e23d94bf71 Trac #28974: F-strings (PEP 498) are not correctly handled by Sage's preparser

480fa62e50 Trac #30803: Upgrade pybind11 to 2.6.0 to fix "critical incompatibility with Python 3.9.0"

53285707f0 (tag: 9.2, trac/master) Updated SageMath version to 9.2

[Thierry Dumont]

On Ubutnu 20-10, compilation ok.
make ptestlong:

----------------------------------------------------------------------
sage -t --long --warn-long 89.4 --random-seed=0
src/sage/interfaces/singular.py # Killed due to segmentation fault
sage -t --long --warn-long 89.4 --random-seed=0
src/sage/modules/fg_pid/fgp_module.py # 3 doctests failed
sage -t --long --warn-long 89.4 --random-seed=0
src/sage/interfaces/sagespawn.pyx # 1 doctest failed
sage -t --long --warn-long 89.4 --random-seed=0
src/sage/modules/free_module_morphism.py # 3 doctests failed
sage -t --long --warn-long 89.4 --random-seed=0
src/doc/en/constructions/algebraic_geometry.rst # 1 doctest failed
sage -t --long --warn-long 89.4 --random-seed=0
src/doc/en/developer/coding_in_other.rst # 1 doctest failed
----------------------------------------------------------------------


**********************************************************************
File "src/sage/modules/fg_pid/fgp_module.py", line 130, in
sage.modules.fg_pid.fgp_module
Failed example:
y = f.lift(3*M1.0); y
Expected:
(0, 13)
Got:
(1, 0)
**********************************************************************
File "src/sage/modules/fg_pid/fgp_module.py", line 1417, in
sage.modules.fg_pid.fgp_module.FGP_Module_class.optimized
Failed example:
X
Expected:
[0 4 0]
[0 1 0]
[0 0 1]
Got:
[ 0 -8 0]
[ 0 1 0]
[ 0 0 1]
**********************************************************************
File "src/sage/interfaces/sagespawn.pyx", line 239, in
sage.interfaces.sagespawn.SagePtyProcess.terminate_async
Failed example:
sig_on_count() # check sig_on/off pairings (virtual doctest)
Expected:
0
Got:
doctest:warning
File "/usr/local/sage3/sage/src/bin/sage-runtests", line 182, in
<module>
err = DC.run()
File
"/usr/local/sage3/sage/local/lib/python3.8/site-packages/sage/doctest/control.py",
line 1237, in run
self.run_doctests()
File
"/usr/local/sage3/sage/local/lib/python3.8/site-packages/sage/doctest/control.py",
line 938, in run_doctests
self.dispatcher.dispatch()
.....
File "src/sage/modules/free_module_morphism.py", line 353, in
sage.modules.free_module_morphism.FreeModuleMorphism.lift
Failed example:
f.lift([1/3])
Expected:
(8, -16)
Got:
(20, -48)
**********************************************************************
File "src/sage/modules/free_module_morphism.py", line 355, in
sage.modules.free_module_morphism.FreeModuleMorphism.lift
Failed example:
f.lift([1/2])
Expected:
(12, -24)
Got:
(30, -72)
**********************************************************************
File "src/sage/modules/free_module_morphism.py", line 357, in
sage.modules.free_module_morphism.FreeModuleMorphism.lift
Failed example:
f.lift([1/6])
Expected:
(4, -8)
Got:
(10, -24)
**********************************************************************
File "src/doc/en/constructions/algebraic_geometry.rst", line 145, in
doc.en.constructions.algebraic_geometry
Failed example:
print(L)
Expected:
[1]:
_[1]=y
_[2]=x
...
Got:
[1]:
_[1]=y^2+y+1
_[2]=x+1
[2]:
...
ther.rst
**********************************************************************
File "src/doc/en/developer/coding_in_other.rst", line 442, in
doc.en.developer.coding_in_other
Failed example:
print(L)
Expected:
[1]:
[1]:
0
[2]:
1
[3]:
0
[2]:
[1]:
-2
[2]:
-1
[3]:
1
...
Got:
[1]:
[1]:
0
[2]:
1
[3]:
0
[2]:
[1]:
2

[Vincent Delecroix]

My documentation failed to build (compiled from scratch)

[dochtml] [combinat ] The inventory files are in
local/share/doc/sage/inventory/en/reference/combinat.
[dochtml] Error building the documentation.
[dochtml] Traceback (most recent call last):
[dochtml] File "/usr/lib/python3.8/runpy.py", line 194, in
_run_module_as_main
[dochtml] return _run_code(code, main_globals, None,
[dochtml] File "/usr/lib/python3.8/runpy.py", line 87, in _run_code
[dochtml] exec(code, run_globals)
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__main__.py",
line 2, in <module>
[dochtml] main()
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__init__.py",
line 1729, in main
[dochtml] builder()
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__init__.py",
line 344, in _wrapper
[dochtml] getattr(get_builder(document), 'inventory')(*args, **kwds)
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__init__.py",
line 570, in _wrapper
[dochtml] self._build_everything_except_bibliography(lang, format,
*args, **kwds)
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__init__.py",
line 556, in _build_everything_except_bibliography
[dochtml] build_many(build_ref_doc, non_references)
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/__init__.py",
line 296, in build_many
[dochtml] _build_many(target, args, processes=NUM_THREADS)
[dochtml] File
"/opt/sage/local/lib/python3.8/site-packages/sage_setup/docbuild/utils.py",
line 289, in build_many
[dochtml] raise worker_exc.original_exception
[dochtml] OSError:
/opt/sage/local/lib/python3.8/site-packages/sage/combinat/fully_commutative_elements.py:docstring
of
sage.combinat.fully_commutative_elements.FullyCommutativeElement.plot_heap:18:
WARNING: Exception occurred in plotting fully_commutative_elements-1
make[3]: *** [Makefile:1876 : doc-html] Erreur 1
make[2]: *** [Makefile:1766 : all-start] Erreur 2

[David Coudert]

Hello,

I’m unable to build beta0 on macOS 10.15.7 :(

I did:
$ make distclean
$ ./bootstrap
$ source .homebrew-build-env
$ ./configure

Then, I followed the recommandation and did:
$ brew install pandoc ffmpeg imagemagick texinfo
$ ./config.status --recheck && ./config.status

Surprisingly, I still get the recommandation to run : brew install pandoc ffmpeg imagemagick texinfo
So something must be wrong somewhere, but what?

I then tried
$ make V=0 build

but it fails.

Something I don’t understand is that the command `brew install pandoc ffmpeg imagemagick texinfo` has caused the installation of Python 3.9, and that Sagemath use it. Is it expected ? 

The log file can be found here (too big for email apparently):

https://filesender.renater.fr/?s=download&token=5cbf0701-548c-493e-920a-c22fb55cc7ab

Let me know if something else is needed to understand the issue.

Best,

David.

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[Emmanuel Charpentier]

On Debian testing running on core i7 + 16 GB RAM, after upgrading 9.2 to 9.3.beta0 configured to use all available system packages, ptestlong results in one transient and four permanent failures,all already reported for (some previous versions :

File	Results	P/T
src/sage/tests/parigp.py	Timed out	T
src/sage/modules/fg_pid/fgp_module.py	3 doctests failed	P
src/doc/en/developer/coding_in_other.rst	1 doctest failed	P
src/doc/en/constructions/algebraic_geometry.rst	1 doctest failed	P
src/sage/modules/free_module_morphism.py	3 doctests failed	P

HTH,

​

[Kenji Iohara]

I could compile it on Mac OS 10.15.7 but required reinstallation of openssl with 

$ source .homebrew-build-env

make ptestlong didn't pass: 

2020年11月1日(日) 2:07 Volker Braun <vbrau...@gmail.com>:

[John H Palmieri]

On Sunday, November 1, 2020 at 7:29:31 AM UTC-8, David Coudert wrote:

Hello,

I’m unable to build beta0 on macOS 10.15.7 :(

I did:
$ make distclean
$ ./bootstrap
$ source .homebrew-build-env
$ ./configure

Then, I followed the recommandation and did:
$ brew install pandoc ffmpeg imagemagick texinfo
$ ./config.status --recheck && ./config.status

Surprisingly, I still get the recommandation to run : brew install pandoc ffmpeg imagemagick texinfo
So something must be wrong somewhere, but what?

I don't know what's going on with pandoc, and I see the same behavior. With the others, Sage does not currently check whether they are available, it just prints a recommendation to install them. So those messages are always going to be printed. Maybe the message should be clarified.

To unsubscribe from this group and stop receiving emails from it, send an email to sage-r...@googlegroups.com.

[Sébastien Labbé]

On Ubuntu 18.04 with python3.8.0 installed, testing few optional and external packages, I obtain:

Using --optional=4ti2,cbc,ccache,cryptominisat,database_jones_numfield,debian,dot2tex,e_antic,external,fricas,glucose,latte_int,libnauty,lidia,lrslib,memlimit,normaliz,notedown,pandoc_attributes,pip,pycosat,pynormaliz,rst2ipynb,sage,sage_numerical_backends_coin,sage_spkg

----------------------------------------------------------------------
sage -t --long --warn-long 50.3 --random-seed=0 src/sage/databases/findstat.py  # 2 doctests failed
sage -t --long --warn-long 50.3 --random-seed=0 src/sage/interfaces/singular.py  # Killed due to segmentation fault
sage -t --long --warn-long 50.3 --random-seed=0 src/sage/lfunctions/sympow.py  # 4 doctests failed
sage -t --long --warn-long 50.3 --random-seed=0 src/sage/schemes/elliptic_curves/ell_rational_field.py  # 2 doctests failed
----------------------------------------------------------------------
External software detected for doctesting: ffmpeg,graphviz,imagemagick,internet,latex,octave,pandoc

Retesting failed tests, the singular issue does not reproduce:

----------------------------------------------------------------------
sage -t --long --warn-long 50.9 --random-seed=0 src/sage/databases/findstat.py  # 2 doctests failed
sage -t --long --warn-long 50.9 --random-seed=0 src/sage/lfunctions/sympow.py  # 4 doctests failed
sage -t --long --warn-long 50.9 --random-seed=0 src/sage/schemes/elliptic_curves/ell_rational_field.py  # 2 doctests failed
----------------------------------------------------------------------
External software detected for doctesting: internet

Meta-ticket Follow up at: https://trac.sagemath.org/ticket/25536

The findstat issue already has a positive review at https://trac.sagemath.org/ticket/30630

The issues with sympow.py  and ell_rational_field.py are similar (RuntimeError: failed to compute analytic rank) and are already tracked at https://trac.sagemath.org/ticket/30633. For example:

sage -t --long --warn-long 50.9 --random-seed=0 src/sage/lfunctions/sympow.py
**********************************************************************
File "src/sage/lfunctions/sympow.py", line 275, in sage.lfunctions.sympow.Sympow.analytic_rank
Failed example:
    sympow.analytic_rank(EllipticCurve('11a'))
Exception raised:

    Traceback (most recent call last):

      File "/home/slabbe/GitBox/sage/local/lib/python3.8/site-packages/sage/doctest/forker.py", line 720, in _run
        self.compile_and_execute(example, compiler, test.globs)
      File "/home/slabbe/GitBox/sage/local/lib/python3.8/site-packages/sage/doctest/forker.py", line 1145, in compile_and_execute
        exec(compiled, globs)
      File "<doctest sage.lfunctions.sympow.Sympow.analytic_rank[0]>", line 1, in <module>
        sympow.analytic_rank(EllipticCurve('11a'))
      File "/home/slabbe/GitBox/sage/local/lib/python3.8/site-packages/sage/lfunctions/sympow.py", line 297, in analytic_rank
        raise RuntimeError("failed to compute analytic rank")
    RuntimeError: failed to compute analytic rank
**********************************************************************

I can reproduce the issue on the command-line:

sage: sympow.analytic_rank(EllipticCurve('11a'))                                                                              
Segmentation fault
---------------------------------------------------------------------------
RuntimeError                              Traceback (most recent call last)
<ipython-input-1-8cf6df7248bc> in <module>
----> 1 sympow.analytic_rank(EllipticCurve('11a'))
~/GitBox/sage/local/lib/python3.8/site-packages/sage/lfunctions/sympow.py in analytic_rank(self, E)
    295         if i == -1:
    296             print(self._fix_err(v))
--> 297             raise RuntimeError("failed to compute analytic rank")
    298         j = v.rfind(':')
    299         r = sage.rings.all.Integer(v[i + len(s):j])
RuntimeError: failed to compute analytic rank

Am I alone to have this RuntimeError?

[axio...@yahoo.de]

the findstat issue is fixed and has positive review, see https://trac.sagemath.org/ticket/30630

[axio...@yahoo.de]

On Ubuntu 20.04 I get

[openssl-1.1.1h] sage_bootstrap.tarball.FileNotMirroredError: tarball does not exist on mirror network
[openssl-1.1.1h] ************************************************************************
[openssl-1.1.1h] ************************************************************************
[openssl-1.1.1h] Error downloading openssl-1.1.1h.tar.gz

[Dima Pasechnik]

Sage can use system Python 3.9 in theory, but this is only mildly tested, and is not tested on macOS, I think.

is the default Python on Homebrew 3.9 now?

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/C8267181-5C51-41D3-8D69-99760FC9A703%40gmail.com.

[Matthias Köppe]

On Sunday, November 1, 2020 at 7:29:31 AM UTC-8, David Coudert wrote:

I’m unable to build beta0 on macOS 10.15.7 :(

I did:
$ make distclean
$ ./bootstrap
$ source .homebrew-build-env
$ ./configure

[...]

I then tried
$ make V=0 build

but it fails.[...]

The log file can be found here (too big for email apparently):

https://filesender.renater.fr/?s=download&token=5cbf0701-548c-493e-920a-c22fb55cc7ab

Let me know if something else is needed to understand the issue.

I see:

g++ -bundle -undefined dynamic_lookup -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk -L/Users/dcoudert/sage/local/lib -Wl,-rpath,/Users/dcoudert/sage/local/lib build/temp.macosx-10.15-x86_64-3.9/build/cythonized/sage/libs/pynac/pynac.o -L/usr/local/Cellar/gsl/2.6/lib -L/usr/local/Cellar/openblas/0.3.10_1/lib -L/usr/local/lib -L/usr/local/opt/openssl@1.1/lib -L/usr/local/opt/sqlite/lib -lgsl -lgmp -lm -lopenblas -lpynac -o build/lib.macosx-10.15-x86_64-3.9/sage/libs/pynac/pynac.cpython-39-darwin.so

[156/524] creating build/temp.macosx-10.15-x86_64-3.9/build/cythonized/sage/libs/giac

gcc -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include -I/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/System/Library/Frameworks/Tk.framework/Versions/8.5/Headers -Isage/libs/giac -I./sage/cpython -I/Users/dcoudert/sage/local/lib/python3.9/site-packages/cysignals -I/Users/dcoudert/sage/build/pkgs/sagelib/src -I/usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Versions/3.9/include/python3.9 -I/Users/dcoudert/sage/local/lib/python3.9/site-packages/numpy/core/include -Ibuild/cythonized -I/usr/local/include -I/usr/local/opt/openssl@1.1/include -I/usr/local/opt/sqlite/include -I/Users/dcoudert/sage/local/include -I/usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Versions/3.9/include/python3.9 -c build/cythonized/sage/libs/giac/giac.cpp -o build/temp.macosx-10.15-x86_64-3.9/build/cythonized/sage/libs/giac/giac.o -fno-strict-aliasing -DCYTHON_CLINE_IN_TRACEBACK=1 -std=c++11

build/cythonized/sage/libs/giac/giac.cpp:674:10: fatal error: 'giac/giac.h' file not found

#include "giac/giac.h"

         ^~~~~~~~~~~~~

1 error generated.

Is this file present in your system?

[Travis Scrimshaw]

I don't think the p_group_cohomology has been updated on the mirrors yet. At least, I had to download it manually off the ticket.

Best,

Travis

[David Coudert]

Hello,

No, I don’t find giac.h in my system (find / -name "giac.h").

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[David Coudert]

I don’t know if Python 3.9 is default forhome-brew or not, but looking back at the result of command "$ brew install pandoc ffmpeg imagemagick texinfo", I see the following issues and I don’t know what to do:

==> Installing ffmpeg dependency: python@3.9

==> Pouring pyt...@3.9-3.9.0_1.catalina.bottle.tar.gz

Warning: These files were overwritten during `brew link` step:

/usr/local/bin/2to3

/usr/local/bin/idle3

/usr/local/bin/pydoc3

/usr/local/bin/python3

/usr/local/bin/python3-config

/usr/local/share/man/man1/python3.1

/usr/local/lib/pkgconfig/python3-embed.pc

/usr/local/lib/pkgconfig/python3.pc

/usr/local/Frameworks/Python.framework/Headers

/usr/local/Frameworks/Python.framework/Python

/usr/local/Frameworks/Python.framework/Resources

/usr/local/Frameworks/Python.framework/Versions/Current

They have been backed up in /Users/dcoudert/Library/Caches/Homebrew/Backup

==> /usr/local/Cellar/python@3.9/3.9.0_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> /usr/local/Cellar/python@3.9/3.9.0_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> /usr/local/Cellar/python@3.9/3.9.0_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> Caveats

Python has been installed as

  /usr/local/bin/python3

Unversioned symlinks `python`, `python-config`, `pip` etc. pointing to

`python3`, `python3-config`, `pip3` etc., respectively, have been installed into

  /usr/local/opt/python@3.9/libexec/bin

You can install Python packages with

  pip3 install <package>

They will install into the site-package directory

  /usr/local/lib/python3.9/site-packages

See: https://docs.brew.sh/Homebrew-and-Python

==> Summary

🍺  /usr/local/Cellar/python@3.9/3.9.0_1: 4,447 files, 72MB

….

==> Installing imagemagick dependency: ghostscript

==> Pouring ghostscript-9.53.3.catalina.bottle.tar.gz

Error: The `brew link` step did not complete successfully

The formula built, but is not symlinked into /usr/local

Could not symlink bin/dvipdf

Target /usr/local/bin/dvipdf

already exists. You may want to remove it:

  rm '/usr/local/bin/dvipdf'

To force the link and overwrite all conflicting files:

  brew link --overwrite ghostscript

To list all files that would be deleted:

  brew link --overwrite --dry-run ghostscript

Possible conflicting files are:

/usr/local/bin/dvipdf

/usr/local/bin/eps2eps

/usr/local/bin/gs -> /usr/local/bin/gs-noX11

/usr/local/bin/gsbj

/usr/local/bin/gsdj

/usr/local/bin/gsdj500

/usr/local/bin/gslj

/usr/local/bin/gslp

/usr/local/bin/gsnd

/usr/local/bin/lprsetup.sh

/usr/local/bin/pdf2dsc

/usr/local/bin/pdf2ps

/usr/local/bin/pf2afm

/usr/local/bin/pfbtopfa

/usr/local/bin/pphs

/usr/local/bin/printafm

/usr/local/bin/ps2ascii

/usr/local/bin/ps2epsi

/usr/local/bin/ps2pdf

/usr/local/bin/ps2pdf12

/usr/local/bin/ps2pdf13

/usr/local/bin/ps2pdf14

/usr/local/bin/ps2pdfwr

/usr/local/bin/ps2ps

/usr/local/bin/ps2ps2

/usr/local/bin/unix-lpr.sh

/usr/local/share/man/man1/dvipdf.1

/usr/local/share/man/man1/eps2eps.1 -> /usr/local/share/man/man1/ps2ps.1

/usr/local/share/man/man1/gs.1

/usr/local/share/man/man1/gsbj.1 -> /usr/local/share/man/man1/gslp.1

/usr/local/share/man/man1/gsdj.1 -> /usr/local/share/man/man1/gslp.1

/usr/local/share/man/man1/gsdj500.1 -> /usr/local/share/man/man1/gslp.1

/usr/local/share/man/man1/gslj.1 -> /usr/local/share/man/man1/gslp.1

/usr/local/share/man/man1/gslp.1

/usr/local/share/man/man1/gsnd.1

/usr/local/share/man/man1/pdf2dsc.1

/usr/local/share/man/man1/pdf2ps.1

/usr/local/share/man/man1/pf2afm.1

/usr/local/share/man/man1/pfbtopfa.1

/usr/local/share/man/man1/printafm.1

/usr/local/share/man/man1/ps2ascii.1

/usr/local/share/man/man1/ps2epsi.1

/usr/local/share/man/man1/ps2pdf.1

/usr/local/share/man/man1/ps2pdf12.1 -> /usr/local/share/man/man1/ps2pdf.1

/usr/local/share/man/man1/ps2pdf13.1 -> /usr/local/share/man/man1/ps2pdf.1

/usr/local/share/man/man1/ps2pdf14.1 -> /usr/local/share/man/man1/ps2pdf.1

/usr/local/share/man/man1/ps2pdfwr.1

/usr/local/share/man/man1/ps2ps.1

==> Summary

🍺  /usr/local/Cellar/ghostscript/9.53.3: 668 files, 89.3MB

….

==> Upgrading 2 dependents:

python@3.8 3.8.5 -> 3.8.6_1, tbb 2020_U2 -> 2020_U3_1

==> Upgrading python@3.8 3.8.5 -> 3.8.6_1 

==> Downloading https://homebrew.bintray.com/bottles/python%403.8-3.8.6_1.catalina.bottle.tar.gz

==> Downloading from https://d29vzk4ow07wi7.cloudfront.net/123ddd272ba0670d72578b36c4801b59449ac21e9d5a7e47c34c9e489330600a?response

######################################################################## 100.0%

==> Pouring pyt...@3.8-3.8.6_1.catalina.bottle.tar.gz

Error: The `brew link` step did not complete successfully

The formula built, but is not symlinked into /usr/local

Could not symlink bin/2to3

Target /usr/local/bin/2to3

is a symlink belonging to python@3.9. You can unlink it:

  brew unlink python@3.9

To force the link and overwrite all conflicting files:

  brew link --overwrite python@3.8

To list all files that would be deleted:

  brew link --overwrite --dry-run python@3.8

Possible conflicting files are:

/usr/local/bin/2to3 -> /usr/local/Cellar/python@3.9/3.9.0_1/bin/2to3

/usr/local/bin/idle3 -> /usr/local/Cellar/python@3.9/3.9.0_1/bin/idle3

/usr/local/bin/pydoc3 -> /usr/local/Cellar/python@3.9/3.9.0_1/bin/pydoc3

/usr/local/bin/python3 -> /usr/local/Cellar/python@3.9/3.9.0_1/bin/python3

/usr/local/bin/python3-config -> /usr/local/Cellar/python@3.9/3.9.0_1/bin/python3-config

/usr/local/share/man/man1/python3.1 -> /usr/local/Cellar/python@3.9/3.9.0_1/share/man/man1/python3.1

/usr/local/lib/pkgconfig/python3-embed.pc -> /usr/local/Cellar/python@3.9/3.9.0_1/lib/pkgconfig/python3-embed.pc

/usr/local/lib/pkgconfig/python3.pc -> /usr/local/Cellar/python@3.9/3.9.0_1/lib/pkgconfig/python3.pc

/usr/local/Frameworks/Python.framework/Headers -> /usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Headers

/usr/local/Frameworks/Python.framework/Python -> /usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Python

/usr/local/Frameworks/Python.framework/Resources -> /usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Resources

/usr/local/Frameworks/Python.framework/Versions/Current -> /usr/local/Cellar/python@3.9/3.9.0_1/Frameworks/Python.framework/Versions/Current

==> /usr/local/Cellar/python@3.8/3.8.6_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> /usr/local/Cellar/python@3.8/3.8.6_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> /usr/local/Cellar/python@3.8/3.8.6_1/bin/python3 -s setup.py --no-user-cfg install --force --verbose --install-scripts=/usr/loca

==> Caveats

Python has been installed as

  /usr/local/opt/python@3.8/bin/python3

Unversioned symlinks `python`, `python-config`, `pip` etc. pointing to

`python3`, `python3-config`, `pip3` etc., respectively, have been installed into

  /usr/local/opt/python@3.8/libexec/bin

You can install Python packages with

  /usr/local/opt/python@3.8/bin/pip3 install <package>

They will install into the site-package directory

  /usr/local/lib/python3.8/site-packages

See: https://docs.brew.sh/Homebrew-and-Python

python@3.8 is keg-only, which means it was not symlinked into /usr/local,

because this is an alternate version of another formula.

If you need to have python@3.8 first in your PATH run:

  echo 'export PATH="/usr/local/opt/python@3.8/bin:$PATH"' >> /Users/dcoudert/.bash_profile

For compilers to find python@3.8 you may need to set:

  export LDFLAGS="-L/usr/local/opt/python@3.8/lib"

For pkg-config to find python@3.8 you may need to set:

  export PKG_CONFIG_PATH="/usr/local/opt/python@3.8/lib/pkgconfig"

==> Summary

🍺  /usr/local/Cellar/python@3.8/3.8.6_1: 4,329 files, 69.4MB

Removing: /usr/local/Cellar/python@3.8/3.8.5... (4,560 files, 70.0MB)

==> Upgrading tbb 2020_U2 -> 2020_U3_1 

==> Downloading https://homebrew.bintray.com/bottles/tbb-2020_U3_1.catalina.bottle.tar.gz

==> Downloading from https://d29vzk4ow07wi7.cloudfront.net/e73f880d133b99c5e30120df768cff884d5d66f93f4e84bfc8937f37f9e0b614?response

######################################################################## 100.0%

==> Pouring tbb-2020_U3_1.catalina.bottle.tar.gz

🍺  /usr/local/Cellar/tbb/2020_U3_1: 144 files, 3MB

Removing: /usr/local/Cellar/tbb/2020_U2... (144 files, 3.0MB)

==> Checking for dependents of upgraded formulae...

Error: No such file or directory - /usr/local/Cellar/tbb/2020_U2

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq2ebh86BV0985wnrDfouM2p5p%3D5mGYr%2By2qcb-eDrig7Q%40mail.gmail.com.

[Dima Pasechnik]

On Mon, Nov 2, 2020 at 8:06 AM David Coudert <david....@gmail.com> wrote:
>
> I don’t know if Python 3.9 is default forhome-brew or not, but looking back at the result of command "$ brew install pandoc ffmpeg imagemagick texinfo", I see the following issues and I don’t know what to do:

default or not, I can say that installing ffmped sets Homebrew's Python3 to 3.9.
(specifically, it has a couple of deps which explicitly depend on
Python 3.9, as can be seen by
running

brew deps --tree ffmpeg



Now, our ./configure by default will use whatever python3 points to,
that is, 3.9 in such a case.

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/B0380837-0E4A-4057-A965-E2ACC8B5C826%40gmail.com.

[Samuel Lelièvre]

2020-11-01 19:23 UTC, John H Palmieri:

>
> On Sunday, November 1, 2020 at 7:29:31 AM UTC-8, David Coudert wrote:
>>

>> Surprisingly, I still get the recommendation to run :

>> brew install pandoc ffmpeg imagemagick texinfo
>> So something must be wrong somewhere, but what?
>
> I don't know what's going on with pandoc, and I see
> the same behavior. With the others, Sage does not
>currently check whether they are available, it just prints
> a recommendation to install them. So those messages
> are always going to be printed. Maybe the message
> should be clarified.

Clarifying the recommendation message is tracked at:

- Sage Trac ticket 30624
https://trac.sagemath.org/ticket/30624

I'm behind in fixing my initial attempt; sorry for the delay.

[David Coudert]

so the main issue now is to recover giac.h

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq3S4LNgBxRVcBjWV12Sfi%2BfhvU1BKOciTxrzM0RNq3acA%40mail.gmail.com.

[Dima Pasechnik]

On Mon, 2 Nov 2020, 14:58 David Coudert, <david....@gmail.com> wrote:

so the main issue now is to recover giac.h

rebuild after distclean ?

at least I was able to build Sage 9.3.beta0 with Homebrew's Python 3.9.0.

Running tests now.

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/91A2D343-8668-4D1F-907D-6A7FA059A942%40gmail.com.

[David Coudert]

Le 2 nov. 2020 à 16:34, Dima Pasechnik <dim...@gmail.com> a écrit :

On Mon, 2 Nov 2020, 14:58 David Coudert, <david....@gmail.com> wrote:

so the main issue now is to recover giac.h

rebuild after distclean ?

at least I was able to build Sage 9.3.beta0 with Homebrew's Python 3.9.0.

Running tests now.

I tried but still failing with error

[sagelib-9.3.beta0] build/cythonized/sage/libs/giac/giac.cpp:674:10: fatal error: 'giac/giac.h' file not found

[sagelib-9.3.beta0] #include "giac/giac.h"

[sagelib-9.3.beta0]          ^~~~~~~~~~~~~

[sagelib-9.3.beta0] 1 error generated.

[sagelib-9.3.beta0] error: command '/usr/bin/gcc' failed with exit code 1

:((

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq0Zfea%2BOVvwyGN1uzRzEERDQgqSvQNbA2qE--n65cWLhg%40mail.gmail.com.

[Dima Pasechnik]

I do have giac.h installed:

% find . -name giac.h
./local/include/giac/giac.h

and indeed it is installed by giac:

% grep giac\.h logs/pkgs/giac-1.5.0.87p2.p1.log
/usr/bin/install -c -m 644 isom.h plot.h plot3d.h rpn.h prog.h pari.h
cocoa.h giac.h first.h maple.h help.h tinymt32.h tinymt32_license.h
static.h static_extern.h static_lexer.h static_lexer_.h
lexer_tab_int.h static_help.h giacPCH.h giacintl.h gmp_replacements.h
myostream.h lpsolve.h optimization.h signalprocessing.h graphe.h
graphtheory.h nautywrapper.h markup.h kdisplay.h k_csdk.h
'/Users/dima/sage/local/var/tmp/sage/build/giac-1.5.0.87p2.p1/inst/Users/dima/sage/local/include/giac'

and building works.

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/BC8116BF-F1D7-4095-8BDE-44AE442A4304%40gmail.com.

[David Coudert]

For some reason, giac has not been installed on my side.
Just in case I will try again to compile after distclean but this time using -j1.

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq2DWVfdZ0u6uTqwyDsv8HFNA7G%2BN9jwRcMrO6XiNBQrNA%40mail.gmail.com.

[Henri Girard]

Hi,

I build it with ubuntu 20.10 (Hirsute hippo next coming) build complete
AMD rizen 16 cores 16 Go and ssd 250.

best

Henri

[Dima Pasechnik]

On Mon, Nov 2, 2020 at 8:25 PM David Coudert <david....@gmail.com> wrote:
>
> For some reason, giac has not been installed on my side.

it's because it is not in build/pkgs/sagelib/dependencies
for some reason, even though it should be there

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/71D73220-4FF0-4C8D-BD67-4F15F250763F%40gmail.com.

[David Coudert]

So should we open a ticket to add it and hope it will be included in next beta or is there a trick to force the installation of giac ?

> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq3nO%2BOxoCCRd9hAe8HsFfaBvOpOqYmMkufpa9xOKTXTbg%40mail.gmail.com.

[Dima Pasechnik]

On Mon, 2 Nov 2020, 21:36 David Coudert, <david....@gmail.com> wrote:

So should we open a ticket to add it and hope it will be included in next beta or is there a trick to force the installation of giac ?

one should open a ticket - but meanwhile you can just add giac to the list in that file, and run

./configure && make

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/1492A97D-CEA3-49F8-91A8-ADA7A567C2F4%40gmail.com.

[John H Palmieri]

On Monday, November 2, 2020 at 1:38:37 PM UTC-8, Dima Pasechnik wrote:

On Mon, 2 Nov 2020, 21:36 David Coudert, <david....@gmail.com> wrote:

So should we open a ticket to add it and hope it will be included in next beta or is there a trick to force the installation of giac ?

"make giac" should do it.

 

>>>>>>>> To unsubscribe from this group and stop receiving emails from it, send an email to sage-r...@googlegroups.com.

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>>>>>>>>
>>>>>>>>
>>>>>>>>
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>>>>>>>
>>>>>>>
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>>>>>>>
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>>>>>>
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>>>>
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>>
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>> To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/71D73220-4FF0-4C8D-BD67-

[Dima Pasechnik]

On Mon, Nov 2, 2020 at 10:39 PM John H Palmieri <jhpalm...@gmail.com> wrote:
>
>
>
> On Monday, November 2, 2020 at 1:38:37 PM UTC-8, Dima Pasechnik wrote:
>>
>>
>>
>> On Mon, 2 Nov 2020, 21:36 David Coudert, <david....@gmail.com> wrote:
>>>
>>> So should we open a ticket to add it and hope it will be included in next beta or is there a trick to force the installation of giac ?
>
>
> "make giac" should do it.

as long as dependencies are incorrect, calling make might give one an
unpleasant surprise.

> 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/73efdb0f-899b-4de7-bbd3-759e58de421co%40googlegroups.com.

[David Coudert]

Le 2 nov. 2020 à 22:38, Dima Pasechnik <dim...@gmail.com> a écrit :

On Mon, 2 Nov 2020, 21:36 David Coudert, <david....@gmail.com> wrote:

So should we open a ticket to add it and hope it will be included in next beta or is there a trick to force the installation of giac ?

one should open a ticket - but meanwhile you can just add giac to the list in that file, and run

This is now https://trac.sagemath.org/ticket/30858

To view this discussion on the web visit https://groups.google.com/d/msgid/sage-release/CAAWYfq30TDUrXuUV04iGJZyMaXAu%2B7TsjL-Y_K4L%2BQUUkGEjLg%40mail.gmail.com.