Package: sagemath
Version: 8.6-6
Severity: important
Dear Maintainer,
running sagemath (either directly with 'sage' or running a notebook with
jupyter)
does not work because the kernel crashes. The final error reported by Python is
ImportError:
/usr/lib/python2.7/dist-packages/sage/libs/gap/element.x86_64-linux-gnu.so:
undefined symbol: _GAP_SetEnterStackCount
This renders sage unusable because the kernel will not start. Let me know how
if I can help
by providing more information. I copy the full backtrace below:
Traceback (most recent call last):
File "/usr/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/usr/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "/usr/lib/python2.7/dist-packages/sage/repl/ipython_kernel/__main__.py",
line 3, in <module>
IPKernelApp.launch_instance(kernel_class=SageKernel)
File "/usr/lib/python2.7/dist-packages/traitlets/config/application.py", line
657, in launch_instance
app.initialize(argv)
File "<decorator-gen-121>", line 2, in initialize
File "/usr/lib/python2.7/dist-packages/traitlets/config/application.py", line
87, in catch_config_error
return method(app, *args, **kwargs)
File "/usr/lib/python2.7/dist-packages/ipykernel/kernelapp.py", line 476, in
initialize
self.init_kernel()
File "/usr/lib/python2.7/dist-packages/ipykernel/kernelapp.py", line 387, in
init_kernel
user_ns=self.user_ns,
File "/usr/lib/python2.7/dist-packages/traitlets/config/configurable.py",
line 412, in instance
inst = cls(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/sage/repl/ipython_kernel/kernel.py",
line 52, in __init__
SageJupyterCustomizations(self.shell)
File "/usr/lib/python2.7/dist-packages/sage/repl/ipython_extension.py", line
433, in __init__
import sage.all # until sage's import hell is fixed
File "/usr/lib/python2.7/dist-packages/sage/all.py", line 102, in <module>
from sage.modular.all import *
File "/usr/lib/python2.7/dist-packages/sage/modular/all.py", line 4, in
<module>
from .quatalg.all import *
File "/usr/lib/python2.7/dist-packages/sage/modular/quatalg/__init__.py",
line 4, in <module>
from . import all
File "/usr/lib/python2.7/dist-packages/sage/modular/quatalg/all.py", line 3,
in <module>
from .brandt import BrandtModule
File "/usr/lib/python2.7/dist-packages/sage/modular/quatalg/brandt.py", line
206, in <module>
from sage.modular.hecke.all import (AmbientHeckeModule, HeckeSubmodule,
HeckeModuleElement)
File "/usr/lib/python2.7/dist-packages/sage/modular/hecke/all.py", line 20,
in <module>
from .ambient_module import AmbientHeckeModule, is_AmbientHeckeModule
File "/usr/lib/python2.7/dist-packages/sage/modular/hecke/ambient_module.py",
line 38, in <module>
from sage.modular.arithgroup.all import Gamma0 # for Sturm bound
File "/usr/lib/python2.7/dist-packages/sage/modular/arithgroup/__init__.py",
line 4, in <module>
from . import all
File "/usr/lib/python2.7/dist-packages/sage/modular/arithgroup/all.py", line
6, in <module>
from .congroup_generic import is_CongruenceSubgroup,
CongruenceSubgroup_constructor as CongruenceSubgroup
File
"/usr/lib/python2.7/dist-packages/sage/modular/arithgroup/congroup_generic.py",
line 28, in <module>
from sage.groups.matrix_gps.all import MatrixGroup
File "/usr/lib/python2.7/dist-packages/sage/groups/matrix_gps/all.py", line
13, in <module>
import sage.groups.matrix_gps.pickling_overrides
File
"/usr/lib/python2.7/dist-packages/sage/groups/matrix_gps/pickling_overrides.py",
line 7, in <module>
from sage.groups.matrix_gps.finitely_generated import
FinitelyGeneratedMatrixGroup_gap
File
"/usr/lib/python2.7/dist-packages/sage/groups/matrix_gps/finitely_generated.py",
line 81, in <module>
from sage.groups.matrix_gps.matrix_group import (
File
"/usr/lib/python2.7/dist-packages/sage/groups/matrix_gps/matrix_group.py", line
61, in <module>
from sage.groups.libgap_wrapper import ParentLibGAP
File "sage/libs/gap/element.pxd", line 32, in init sage.groups.libgap_wrapper
(build/cythonized/sage/groups/libgap_wrapper.c:9846)
cdef class GapElement(RingElement):
ImportError:
/usr/lib/python2.7/dist-packages/sage/libs/gap/element.x86_64-linux-gnu.so:
undefined symbol: _GAP_SetEnterStackCount
-- System Information:
Debian Release: bullseye/sid
APT prefers unstable
APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 4.19.0-5-amd64 (SMP w/4 CPU cores)
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE=fr
(charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages sagemath depends on:
ii cysignals-tools 1.8.1+ds-2
ii cython 0.29.2-2
ii ecl 16.1.3+ds-2
ii eclib-tools 20190226-2
ii fflas-ffpack 2.3.2-3
ii flintqs 1:1.0-3
ii gap-atlasrep 1.5.1-2
ii gap-core 4r10p2-1
ii gap-dev 4r10p2-1
ii gap-online-help 4r10p2-1
ii gap-primgrp 3.3.2-1
ii gap-smallgrp 1.3-1
ii gap-table-of-marks 1.2.7-2
ii gap-transgrp 2.0.4-1
ii gfan 0.6.2-2
ii gmp-ecm 7.0.4+ds-5
ii ipython 5.8.0-1
ii iso-codes 4.3-1
ii jmol 14.6.4+2016.11.05+dfsg1-4
ii lcalc 1.23+dfsg-11
ii less 487-0.1+b1
ii libatlas3-base [liblapack.so.3] 3.10.3-8
ii libblas3 [libblas.so.3] 3.8.0-2
ii libbraiding0 1.0-1
ii libbrial-groebner3 1.2.4-2
ii libbrial3 1.2.4-2
ii libc6 2.28-10
ii libcdd-tools 094j-2
ii libcliquer1 1.21-2
ii libec4 20180815-2
ii libecm1 7.0.4+ds-5
ii libflint-2.5.2 2.5.2-19
ii libflint-arb2 1:2.16.0-2
ii libgc1c2 1:7.6.4-0.4
ii libgcc1 1:9.1.0-8
ii libgd3 2.2.5-5.2
ii libgivaro9 4.0.4-2
ii libglpk40 4.65-2
ii libgmp10 2:6.1.2+dfsg-4
ii libgmpxx4ldbl 2:6.1.2+dfsg-4
ii libgomp1 9.1.0-8
ii libgsl23 2.5+dfsg-6
ii libgslcblas0 2.5+dfsg-6
ii libhomfly0 1.02r5-1
ii libiml0 1.0.4-1+b2
ii libjs-mathjax 2.7.4+dfsg-1
ii libjs-three 80+dfsg2-2
ii liblapack3 [liblapack.so.3] 3.8.0-2
ii liblfunction0 1.23+dfsg-11
ii liblinbox-1.5.2-0 1.5.2-2
ii liblinboxsage-1.5.2-0 1.5.2-2
ii liblrcalc1 1.2-2+b1
ii libm4ri-0.0.20140914 20140914-2+b1
ii libm4rie-0.0.20150908 20150908-2
ii libmpc3 1.1.0-1
ii libmpfi0 1.5.3+ds-2
ii libmpfr6 4.0.2-1
ii libntl35 10.5.0-2
ii libpari-gmp-tls6 2.11.2-2
ii libplanarity0 3.0.0.5-3
ii libpng16-16 1.6.37-1
ii libppl14 1:1.2-7
ii libpynac18 0.7.23-2
ii libratpoints-2.1.3 1:2.1.3-1+b2
ii libreadline7 7.0-5
ii librw0 0.8+ds-1
ii libsingular4m1 1:4.1.1-p2+ds-3
ii libstdc++6 9.1.0-8
ii libsymmetrica2 2.0+ds-6
ii libzn-poly-0.9 0.9.1-1
ii maxima-sage 5.41.0+ds-4
ii maxima-sage-share 5.41.0+ds-4
ii nauty 2.6r10+ds-1
ii palp 2.1-5
ii pari-galdata 0.20080411-2
ii pari-gp 2.11.2-2
ii pari-seadata 0.20090618-1
ii python 2.7.16-1
ii python-alabaster 0.7.8-1
ii python-babel 2.6.0+dfsg.1-1
ii python-backports-abc 0.5-2
ii python-backports-shutil-get-terminal-size 1.0.0-5
ii python-backports.functools-lru-cache 1.5-3
ii python-brial 1.2.4-2
ii python-configparser 3.5.0b2-1
ii python-cvxopt 1.1.9+dfsg-3+b1
ii python-cycler 0.10.0-1
ii python-cypari2 1.3.1-2
ii python-cysignals-pari 1.8.1+ds-2
ii python-decorator 4.3.0-1.1
ii python-docutils 0.14+dfsg-4
ii python-enum34 1.1.6-2
ii python-fpylll 0.4.1+ds1-5
ii python-functools32 3.2.3.2-3
ii python-future 0.16.0-1
ii python-imagesize 1.0.0-1
ii python-ipython-genutils 0.2.0-1
ii python-itsdangerous 0.24+dfsg1-2
ii python-matplotlib 2.2.3-6
ii python-mistune 0.8.4-1
ii python-mpmath 1.1.0-1
ii python-networkx 2.2-1
ii python-numpy [python-numpy-abi9] 1:1.16.2-1
ii python-openid 2.2.5-7
ii python-packaging 19.0-1
ii python-path 11.5.0-3
ii python-pathlib2 2.3.4-1
ii python-pexpect 4.6.0-1
ii python-pickleshare 0.7.5-1
ii python-pil 6.1.0-1
ii python-pip 18.1-5
ii python-pkgconfig 1.5.1-2
ii python-prompt-toolkit 1.0.15-1
ii python-psutil 5.5.1-1
ii python-ptyprocess 0.6.0-1
ii python-pygments 2.3.1+dfsg-1
ii python-rpy2 2.8.6-3
ii python-sagenb 1.1.2+ds1-1
ii python-scipy 1.1.0-7
ii python-setuptools 41.0.1-1
ii python-setuptools-scm 3.3.3-1
ii python-simplegeneric 0.8.1-2
ii python-singledispatch 3.4.0.3-2
ii python-snowballstemmer 1.2.1-1
ii python-sphinx 1.8.5-2
ii python-stemmer 1.3.0+dfsg-1+b9
ii python-subprocess32 3.5.3-1
ii python-sympy 1.3-2
ii python-terminado 0.8.2-1
ii python-tornado 5.1.1-4
ii python-traitlets 4.3.2-1
ii python-twisted 18.9.0-3
ii python-typing 3.6.6-1
ii python-tz 2019.1-1
ii python-vcversioner 2.16.0.0-1
ii python-wcwidth 0.1.7+dfsg1-3
ii python-werkzeug 0.14.1+dfsg1-4
ii python-zmq 17.1.2-2
ii python-zope.interface 4.3.2-1+b2
ii r-base-core 3.6.1-2
ii rubiks 20070912-4
ii sagemath-common 8.6-6
ii sagemath-database-conway-polynomials 0.5-5
ii sagemath-database-elliptic-curves 0.8.1-2
ii sagemath-database-graphs 20161026+dfsg-3
ii sagemath-database-mutually-combinatorial-designs 20140630-4
ii sagemath-database-polytopes 20170220-3
ii singular 1:4.1.1-p2+ds-3
ii sqlite3 3.29.0-1
ii sympow 2.023.5-2
ii tachyon 0.99~b6+dsx-9
ii xcas 1.4.9.69+dfsg1-2
ii zlib1g 1:1.2.11.dfsg-1
Versions of packages sagemath recommends:
ii maxima-sage-doc 5.41.0+ds-4
ii pari-doc 2.11.2-2
ii python-sagenb-export 3.2-3
ii r-cran-lattice 0.20-38-1
ii sagemath-doc-en 8.6-6
ii sagemath-jupyter 8.6-6
ii sagetex 3.2+ds-2
ii singular-doc 1:4.1.1-p2+ds-3
ii texlive-latex-base 2019.20190710-1
Versions of packages sagemath suggests:
pn dot2tex <none>
pn gap-design <none>
ii gap-factint 1.6.2+ds-1
pn gap-grape <none>
pn gap-guava <none>
pn gap-laguna <none>
pn gap-sonata <none>
pn gap-toric <none>
-- no debconf information
