The package log has the following error:
/usr/lib/python3/dist-packages/sage/combinat/root_system/branching_rules.py:1753:
SyntaxWarning: "is not" with a literal. Did you mean "!="?
if len(stypes) is not 2:
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1159:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1168:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1175:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1182:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1189:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1196:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
/usr/lib/python3/dist-packages/sage/graphs/graph_latex.py:1203:
SyntaxWarning: 'str' object is not callable; perhaps you missed a comma?
raise TypeError('%s option must be a dictionary, not %s' (name, value))
I think there is something about the way sage is trying to be installed and
python, but I'm unsure how to diagnose. Installing from source is an option
yes, but I fear it will have the same issue.
On Sunday, August 29, 2021 at 2:14:38 AM UTC-5 dim...@gmail.com wrote:
> On Sat, Aug 28, 2021 at 10:57 PM Lance Edward Miller <lem...@uark.edu>
> wrote:
> >
> > To whom it may concern,
> >
> > I'm installing sage from the synaptic package manager on Linux Mint
> 20.1. The package is for Sage 9.0, but the app does not run. Following is
> the crash report, any advice on how to best resolve (uninstall and install
> from source?) is appreciated:
>
> This has to be reported to Linux Mint - we don't do packaging for
> particular Linux distributions, and it looks like a packaging error,
> not anything we can help with.
> You can install Sage in several other ways:
> https://doc.sagemath.org/html/en/installation/index.html
>
> >
> >
> >
> ***************************************************************************
> >
> > IPython post-mortem report
> >
> > {'commit_hash': '<not found>',
> > 'commit_source': '(none found)',
> > 'default_encoding': 'utf-8',
> > 'ipython_path': '/usr/lib/python3/dist-packages/IPython',
> > 'ipython_version': '7.13.0',
> > 'os_name': 'posix',
> > 'platform': 'Linux-5.4.0-81-generic-x86_64-with-glibc2.29',
> > 'sys_executable': '/usr/bin/python3',
> > 'sys_platform': 'linux',
> > 'sys_version': '3.8.10 (default, Jun 2 2021, 10:49:15) \n[GCC 9.4.0]'}
> >
> >
> ***************************************************************************
> >
> >
> >
> >
> ***************************************************************************
> >
> > Crash traceback:
> >
> >
> ---------------------------------------------------------------------------
> >
> ---------------------------------------------------------------------------
> > ImportError Python 3.8.10: /usr/bin/python3
> > Sat Aug 28 16:48:31 2021
> > A problem occurred executing Python code. Here is the sequence of
> function
> > calls leading up to the error, with the most recent (innermost) call
> last.
> > /usr/share/sagemath/bin/sage-ipython in <module>
> > 1 #!/usr/bin/env sage-python
> > 2 # -*- coding: utf-8 -*-
> > 3 """
> > 4 Sage IPython startup script.
> > 5 """
> > 6
> > 7 # Display startup banner. Do this before anything else to give the user
> > 8 # early feedback that Sage is starting.
> > 9 from sage.misc.banner import banner
> > 10 banner()
> > 11
> > 12 from sage.repl.interpreter import SageTerminalApp
> > 13
> > 14 app = SageTerminalApp.instance()
> > ---> 15 app.initialize()
> > global app.initialize = <bound method TerminalIPythonApp.initialize of
> <sage.repl.interpreter.SageTerminalApp object at 0x7f6700317eb0>>
> > 16 app.start()
> >
> > <decorator-gen-113> in
> initialize(self=<sage.repl.interpreter.SageTerminalApp object>, argv=None)
> >
> > /usr/lib/python3/dist-packages/traitlets/config/application.py in
> catch_config_error(method=<function TerminalIPythonApp.initialize>,
> app=<sage.repl.interpreter.SageTerminalApp object>, *args=(None,),
> **kwargs={})
> > 72 TRAITLETS_APPLICATION_RAISE_CONFIG_FILE_ERROR = False
> > 73 else:
> > 74 raise ValueError("Unsupported value for environment variable:
> 'TRAITLETS_APPLICATION_RAISE_CONFIG_FILE_ERROR' is set to '%s' which is
> none of {'0', '1', 'false', 'true', ''}."% _envvar )
> > 75
> > 76
> > 77 @decorator
> > 78 def catch_config_error(method, app, *args, **kwargs):
> > 79 """Method decorator for catching invalid config
> (Trait/ArgumentErrors) during init.
> > 80
> > 81 On a TraitError (generally caused by bad config), this will print the
> trait's
> > 82 message, and exit the app.
> > 83
> > 84 For use on init methods, to prevent invoking excepthook on invalid
> input.
> > 85 """
> > 86 try:
> > ---> 87 return method(app, *args, **kwargs)
> > method = <function TerminalIPythonApp.initialize at 0x7f66febbf5e0>
> > app = <sage.repl.interpreter.SageTerminalApp object at 0x7f6700317eb0>
> > args = (None,)
> > kwargs = {}
> > 88 except (TraitError, ArgumentError) as e:
> > 89 app.print_help()
> > 90 app.log.fatal("Bad config encountered during initialization:")
> > 91 app.log.fatal(str(e))
> > 92 app.log.debug("Config at the time: %s", app.config)
> > 93 app.exit(1)
> > 94
> > 95
> > 96 class ApplicationError(Exception):
> > 97 pass
> > 98
> > 99
> > 100 class LevelFormatter(logging.Formatter):
> > 101 """Formatter with additional `highlevel` record
> > 102
> >
> > /usr/lib/python3/dist-packages/IPython/terminal/ipapp.py in
> initialize(self=<sage.repl.interpreter.SageTerminalApp object>, argv=None)
> > 302
> > 303 return super(TerminalIPythonApp, self).parse_command_line(argv)
> > 304
> > 305 @catch_config_error
> > 306 def initialize(self, argv=None):
> > 307 """Do actions after construct, but before starting the app."""
> > 308 super(TerminalIPythonApp, self).initialize(argv)
> > 309 if self.subapp is not None:
> > 310 # don't bother initializing further, starting subapp
> > 311 return
> > 312 # print self.extra_args
> > 313 if self.extra_args and not self.something_to_run:
> > 314 self.file_to_run = self.extra_args[0]
> > 315 self.init_path()
> > 316 # create the shell
> > --> 317 self.init_shell()
> > self.init_shell = <bound method SageTerminalApp.init_shell of
> <sage.repl.interpreter.SageTerminalApp object at 0x7f6700317eb0>>
> > 318 # and draw the banner
> > 319 self.init_banner()
> > 320 # Now a variety of things that happen after the banner is printed.
> > 321 self.init_gui_pylab()
> > 322 self.init_extensions()
> > 323 self.init_code()
> > 324
> > 325 def init_shell(self):
> > 326 """initialize the InteractiveShell instance"""
> > 327 # Create an InteractiveShell instance.
> > 328 # shell.display_banner should always be False for the terminal
> > 329 # based app, because we call shell.show_banner() by hand below
> > 330 # so the banner shows *before* all extension loading stuff.
> > 331 self.shell = self.interactive_shell_class.instance(parent=self,
> > 332 profile_dir=self.profile_dir,
> >
> > /usr/lib/python3/dist-packages/sage/repl/interpreter.py in
> init_shell(self=<sage.repl.interpreter.SageTerminalApp object>)
> > 727 self.shell.has_sage_extensions = SAGE_EXTENSION in self.extensions
> > 728
> > 729 # Load the %lprun extension if available
> > 730 try:
> > 731 import line_profiler
> > 732 except ImportError:
> > 733 pass
> > 734 else:
> > 735 self.extensions.append('line_profiler')
> > 736
> > 737 if self.shell.has_sage_extensions:
> > 738 self.extensions.remove(SAGE_EXTENSION)
> > 739
> > 740 # load sage extension here to get a crash if
> > 741 # something is wrong with the sage library
> > --> 742 self.shell.extension_manager.load_extension(SAGE_EXTENSION)
> > self.shell.extension_manager.load_extension = <bound method
> ExtensionManager.load_extension of
> <IPython.core.extensions.ExtensionManager object at 0x7f66fcd10490>>
> > global SAGE_EXTENSION = 'sage'
> > 743
> > 744
> >
> > /usr/lib/python3/dist-packages/IPython/core/extensions.py in
> load_extension(self=<IPython.core.extensions.ExtensionManager object>,
> module_str='sage')
> > 72 if module_str in self.loaded:
> > 73 return "already loaded"
> > 74
> > 75 from IPython.utils.syspathcontext import prepended_to_syspath
> > 76
> > 77 with self.shell.builtin_trap:
> > 78 if module_str not in sys.modules:
> > 79 with prepended_to_syspath(self.ipython_extension_dir):
> > 80 mod = import_module(module_str)
> > 81 if mod.__file__.startswith(self.ipython_extension_dir):
> > 82 print(("Loading extensions from {dir} is deprecated. "
> > 83 "We recommend managing extensions like any "
> > 84 "other Python packages, in site-packages.").format(
> > 85 dir=compress_user(self.ipython_extension_dir)))
> > 86 mod = sys.modules[module_str]
> > ---> 87 if self._call_load_ipython_extension(mod):
> > self._call_load_ipython_extension = <bound method
> ExtensionManager._call_load_ipython_extension of
> <IPython.core.extensions.ExtensionManager object at 0x7f66fcd10490>>
> > mod = <module 'sage' from
> '/usr/lib/python3/dist-packages/sage/__init__.py'>
> > 88 self.loaded.add(module_str)
> > 89 else:
> > 90 return "no load function"
> > 91
> > 92 def unload_extension(self, module_str):
> > 93 """Unload an IPython extension by its module name.
> > 94
> > 95 This function looks up the extension's name in ``sys.modules`` and
> > 96 simply calls ``mod.unload_ipython_extension(self)``.
> > 97
> > 98 Returns the string "no unload function" if the extension doesn't
> define
> > 99 a function to unload itself, "not loaded" if the extension isn't
> loaded,
> > 100 otherwise None.
> > 101 """
> > 102 if module_str not in self.loaded:
> >
> > /usr/lib/python3/dist-packages/IPython/core/extensions.py in
> _call_load_ipython_extension(self=<IPython.core.extensions.ExtensionManager
> object>, mod=<module 'sage' from
> '/usr/lib/python3/dist-packages/sage/__init__.py'>)
> > 119 """
> > 120 from IPython.utils.syspathcontext import prepended_to_syspath
> > 121
> > 122 if (module_str in self.loaded) and (module_str in sys.modules):
> > 123 self.unload_extension(module_str)
> > 124 mod = sys.modules[module_str]
> > 125 with prepended_to_syspath(self.ipython_extension_dir):
> > 126 reload(mod)
> > 127 if self._call_load_ipython_extension(mod):
> > 128 self.loaded.add(module_str)
> > 129 else:
> > 130 self.load_extension(module_str)
> > 131
> > 132 def _call_load_ipython_extension(self, mod):
> > 133 if hasattr(mod, 'load_ipython_extension'):
> > --> 134 mod.load_ipython_extension(self.shell)
> > mod.load_ipython_extension = <function load_ipython_extension at
> 0x7f67002d7040>
> > self.shell = <sage.repl.interpreter.SageTerminalInteractiveShell object
> at 0x7f66feb5bac0>
> > 135 return True
> > 136
> > 137 def _call_unload_ipython_extension(self, mod):
> > 138 if hasattr(mod, 'unload_ipython_extension'):
> > 139 mod.unload_ipython_extension(self.shell)
> > 140 return True
> > 141
> > 142 @undoc
> > 143 def install_extension(self, url, filename=None):
> > 144 """
> > 145 Deprecated.
> > 146 """
> > 147 # Ensure the extension directory exists
> > 148 raise DeprecationWarning(
> > 149 '`install_extension` and the `install_ext` magic have been
> deprecated since IPython 4.0'
> >
> > /usr/lib/python3/dist-packages/sage/__init__.py in
> load_ipython_extension(*args=(<sage.repl.interpreter.SageTerminalInteractiveShell
>
> object>,))
> > 1 __all__ = ['all']
> > 2
> > 3 # Set sage.__version__ to the current version number. This is analogous
> > 4 # to many other Python packages.
> > 5 from sage.version import version as __version__
> > 6
> > 7 # Make sure that the correct zlib library is loaded. This is needed
> > 8 # to prevent the system zlib to be loaded instead of the Sage one.
> > 9 # See https://trac.sagemath.org/ticket/23122
> > 10 import zlib
> > 11
> > 12 # IPython calls this when starting up
> > 13 def load_ipython_extension(*args):
> > 14 import sage.repl.ipython_extension
> > ---> 15 sage.repl.ipython_extension.load_ipython_extension(*args)
> > sage.repl.ipython_extension.load_ipython_extension = <function
> load_ipython_extension at 0x7f66fcacaa60>
> > args = (<sage.repl.interpreter.SageTerminalInteractiveShell object at
> 0x7f66feb5bac0>,)
> > 16
> > 17
> > 18 # Monkey-patch inspect.isfunction() to support Cython functions.
> > 19 def isfunction(obj):
> > 20 """
> > 21 Check whether something is a function.
> > 22
> > 23 We assume that anything which has a genuine ``__code__``
> > 24 attribute (not using ``__getattr__`` overrides) is a function.
> > 25 This is meant to support Cython functions.
> > 26
> > 27 EXAMPLES::
> > 28
> > 29 sage: from inspect import isfunction
> > 30 sage: def f(): pass
> > 31 sage: isfunction(f)
> >
> > /usr/lib/python3/dist-packages/sage/repl/ipython_extension.py in
> wrapper(*args=(<sage.repl.interpreter.SageTerminalInteractiveShell
> object>,), **kwargs={})
> > 547 ....: if work:
> > 548 ....: return 'foo worked'
> > 549 ....: raise RuntimeError("foo didn't work")
> > 550 sage: foo(False)
> > 551 Traceback (most recent call last):
> > 552 ...
> > 553 RuntimeError: foo didn't work
> > 554 sage: foo(True)
> > 555 'foo worked'
> > 556 sage: foo(False)
> > 557 sage: foo(True)
> > 558 """
> > 559 @wraps(func)
> > 560 def wrapper(*args, **kwargs):
> > 561 if not wrapper.has_run:
> > --> 562 result = func(*args, **kwargs)
> > result = undefined
> > global func = undefined
> > args = (<sage.repl.interpreter.SageTerminalInteractiveShell object at
> 0x7f66feb5bac0>,)
> > kwargs = {}
> > 563 wrapper.has_run = True
> > 564 return result
> > 565 wrapper.has_run = False
> > 566 return wrapper
> > 567
> > 568
> > 569 @run_once
> > 570 def load_ipython_extension(ip):
> > 571 """
> > 572 Load the extension in IPython.
> > 573 """
> > 574 # this modifies ip
> > 575 SageCustomizations(shell=ip)
> >
> > /usr/lib/python3/dist-packages/sage/repl/ipython_extension.py in
> load_ipython_extension(ip=<sage.repl.interpreter.SageTerminalInteractiveShell
> object>)
> > 560 def wrapper(*args, **kwargs):
> > 561 if not wrapper.has_run:
> > 562 result = func(*args, **kwargs)
> > 563 wrapper.has_run = True
> > 564 return result
> > 565 wrapper.has_run = False
> > 566 return wrapper
> > 567
> > 568
> > 569 @run_once
> > 570 def load_ipython_extension(ip):
> > 571 """
> > 572 Load the extension in IPython.
> > 573 """
> > 574 # this modifies ip
> > --> 575 SageCustomizations(shell=ip)
> > global SageCustomizations = <class
> 'sage.repl.ipython_extension.SageCustomizations'>
> > global shell = undefined
> > ip = <sage.repl.interpreter.SageTerminalInteractiveShell object at
> 0x7f66feb5bac0>
> >
> > /usr/lib/python3/dist-packages/sage/repl/ipython_extension.py in
> __init__(self=<sage.repl.ipython_extension.SageCustomizations object>,
> shell=<sage.repl.interpreter.SageTerminalInteractiveShell object>)
> > 420 def __init__(self, shell=None):
> > 421 """
> > 422 Initialize the Sage plugin.
> > 423 """
> > 424 self.shell = shell
> > 425
> > 426 self.auto_magics = SageMagics(shell)
> > 427 self.shell.register_magics(self.auto_magics)
> > 428
> > 429 import sage.misc.edit_module as edit_module
> > 430 self.shell.set_hook('editor', edit_module.edit_devel)
> > 431
> > 432 self.init_inspector()
> > 433 self.init_line_transforms()
> > 434
> > --> 435 import sage.all # until sage's import hell is fixed
> > sage.all = undefined
> > 436
> > 437 self.shell.verbose_quit = True
> > 438 self.set_quit_hook()
> > 439
> > 440 self.register_interface_magics()
> > 441
> > 442 if SAGE_IMPORTALL == 'yes':
> > 443 self.init_environment()
> > 444
> > 445 def register_interface_magics(self):
> > 446 """
> > 447 Register magics for each of the Sage interfaces
> > 448 """
> > 449 from sage.repl.interface_magic import InterfaceMagic
> > 450 InterfaceMagic.register_all(self.shell)
> >
> > /usr/lib/python3/dist-packages/sage/all.py in <module>
> > 91 warnings.filterwarnings('ignore', category=RuntimeWarning,
> > 92 message=r"'sin' and 'sout' swap memory stats couldn't be determined")
> > 93 from sage.misc.all import * # takes a while
> > 94 from sage.typeset.all import *
> > 95 from sage.repl.all import *
> > 96
> > 97 from sage.misc.sh import sh
> > 98
> > 99 from sage.libs.all import *
> > 100 from sage.data_structures.all import *
> > 101 from sage.doctest.all import *
> > 102
> > 103 from sage.structure.all import *
> > 104 from sage.rings.all import *
> > 105 from sage.arith.all import *
> > --> 106 from sage.matrix.all import *
> > global sage.matrix.all = undefined
> > 107
> > 108 from sage.symbolic.all import *
> > 109 from sage.modules.all import *
> > 110 from sage.monoids.all import *
> > 111 from sage.algebras.all import *
> > 112 from sage.modular.all import *
> > 113 from sage.sat.all import *
> > 114 from sage.schemes.all import *
> > 115 from sage.graphs.all import *
> > 116 from sage.groups.all import *
> > 117 from sage.arith.power import generic_power as power
> > 118 from sage.databases.all import *
> > 119 from sage.categories.all import *
> > 120 from sage.sets.all import *
> > 121 from sage.probability.all import *
> >
> > /usr/lib/python3/dist-packages/sage/matrix/__init__.py in <module>
> > 1 # Resolve a cyclic import
> > ----> 2 import sage.matrix.args
> > global sage.matrix.args = undefined
> >
> > /usr/lib/python3/dist-packages/sage/matrix/args.pyx in init
> sage.matrix.args (build/cythonized/sage/matrix/args.c:21273)()
> > 8 # Copyright (C) 2018 Jeroen Demeyer <j.de...@ugent.be>
> > 9 #
> > 10 # This program is free software: you can redistribute it and/or modify
> > 11 # it under the terms of the GNU General Public License as published by
> > 12 # the Free Software Foundation, either version 2 of the License, or
> > 13 # (at your option) any later version.
> > 14 # http://www.gnu.org/licenses/
> > 15
> #*****************************************************************************
> > 16
> > 17 cimport cython
> > 18 from cpython.sequence cimport PySequence_Fast
> > 19 from cysignals.signals cimport sig_check
> > 20 from cypari2.gen cimport Gen
> > 21 from cypari2.types cimport typ, t_MAT, t_VEC, t_COL, t_VECSMALL,
> t_LIST, t_STR, t_CLOSURE
> > 22
> > ---> 23 from .matrix_space import MatrixSpace
> > global matrix_space = undefined
> > global MatrixSpace = undefined
> > 24 from sage.rings.all import ZZ, RDF, CDF
> > 25 from sage.structure.coerce cimport (coercion_model,
> > 26 is_numpy_type, py_scalar_parent)
> > 27 from sage.structure.element cimport Element, RingElement, Vector
> > 28 from sage.arith.long cimport pyobject_to_long
> > 29 from sage.misc.misc_c import sized_iter
> > 30 from sage.categories import monoids
> > 31
> > 32
> > 33 CommutativeMonoids = monoids.Monoids().Commutative()
> > 34
> > 35
> > 36 cdef inline bint element_is_scalar(Element x):
> > 37 """
> > 38 Should this element be considered a scalar (as opposed to a vector)?
> >
> > /usr/lib/python3/dist-packages/sage/matrix/matrix_space.py in <module>
> > 31 # (at your option) any later version.
> > 32 # https://www.gnu.org/licenses/
> > 33 #
> ****************************************************************************
> > 34 from __future__ import print_function, absolute_import
> > 35 from six.moves import range
> > 36 from six import iteritems, integer_types
> > 37
> > 38 # System imports
> > 39 import sys
> > 40 import operator
> > 41
> > 42 # Sage matrix imports
> > 43 from . import matrix_generic_dense
> > 44 from . import matrix_generic_sparse
> > 45
> > ---> 46 from . import matrix_modn_sparse
> > global matrix_modn_sparse = undefined
> > 47
> > 48 from . import matrix_mod2_dense
> > 49 from . import matrix_gf2e_dense
> > 50
> > 51 from . import matrix_integer_dense
> > 52 from . import matrix_integer_sparse
> > 53
> > 54 from . import matrix_rational_dense
> > 55 from . import matrix_rational_sparse
> > 56
> > 57 from . import matrix_polynomial_dense
> > 58 from . import matrix_mpolynomial_dense
> > 59
> > 60 # Sage imports
> > 61 from sage.misc.superseded import deprecation
> >
> > ImportError: /usr/lib/python3/dist-packages/sage/matrix/
> matrix_modn_sparse.cpython-38-x86_64-linux-gnu.so: undefined symbol:
> _ZNK6Givaro7IntegercvNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEB5cxx11Ev
> >
> >
> ***************************************************************************
> >
> > History of session input:
> > *** Last line of input (may not be in above history):
> >
> > Best,
> > Lance
> >
> > --
> > You received this message because you are subscribed to the Google
> Groups "sage-support" group.
> > To unsubscribe from this group and stop receiving emails from it, send
> an email to sage-support...@googlegroups.com.
> > To view this discussion on the web visit
> https://groups.google.com/d/msgid/sage-support/CAPEqHYnogPuc6SeExsyA7oXt54UcKYPECSp1N0u%3Dqpq-jn69JQ%40mail.gmail.com
> .
>
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