Ubuntu
matplotlib package

matplotlib crashes after recent tcl/tk update

Bug #1266605 reported by Tim Lunn on 2014-01-07

This bug affects 1 person

Affects		Status	Importance	Assigned to	Milestone
	matplotlib (Ubuntu)	Fix Released	Undecided	Julian Taylor

Bug Description

matplotlib now segfaults after last weeks tcl/tk update.

See attach script to reproduce crash

Exception in Tkinter callback
Traceback (most recent call last):
  File "/usr/lib/python2.7/lib-tk/Tkinter.py", line 1482, in __call__
    return self.func(*args)
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/backend_tkagg.py", line 276, in resize
    self.show()
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/backend_tkagg.py", line 349, in draw
    tkagg.blit(self._tkphoto, self.renderer._renderer, colormode=2)
  File "/usr/lib/pymodules/python2.7/matplotlib/backends/tkagg.py", line 20, in blit
    tk.call("PyAggImagePhoto", photoimage, id(aggimage), colormode, id(bbox_array))
TclError

ProblemType: Bug
DistroRelease: Ubuntu 14.04
Package: python-matplotlib 1.3.1-1ubuntu2
ProcVersionSignature: Ubuntu 3.12.0-7.15-generic 3.12.4
Uname: Linux 3.12.0-7-generic x86_64
NonfreeKernelModules: nvidia
ApportVersion: 2.12.7-0ubuntu3
Architecture: amd64
CurrentDesktop: GNOME
Date: Tue Jan 7 11:02:40 2014
InstallationDate: Installed on 2012-09-23 (470 days ago)
InstallationMedia: Ubuntu GNOME Remix 12.10 "Quantal Quetzal" - Alpha amd64(20120922)
SourcePackage: matplotlib
UpgradeStatus: No upgrade log present (probably fresh install)

Tags:

Related branches

lp:ubuntu/trusty-proposed/matplotlib

lp:ubuntu/trusty/matplotlib

Revision history for this message

Tim Lunn (darkxst) wrote on 2014-01-07:

Dependencies.txt Edit (6.4 KiB, text/plain; charset="utf-8")
ProcEnviron.txt Edit (319 bytes, text/plain; charset="utf-8")

Revision history for this message

Tim Lunn (darkxst) wrote on 2014-01-07:

simple script to reproduce crash Edit (105 bytes, text/x-python)

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Tim Lunn (darkxst) wrote on 2014-01-07:

backtrace Edit (18.3 KiB, text/plain)

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Tim Lunn (darkxst) wrote on 2014-01-07:

I tried to do a local build in pbuilder and currently the tkagg backend is not being built.

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Tim Lunn (darkxst) wrote on 2014-01-08:

matplotlib.tk86.debdiff Edit (1.2 KiB, text/plain)

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Julian Taylor (jtaylor) wrote on 2014-01-08:

thanks seems to work
matplotlib really needs a autopkgtest, this breaks regularly ...

Changed in matplotlib (Ubuntu):
assignee:	nobody → Julian Taylor (jtaylor)

Revision history for this message

Launchpad Janitor (janitor) wrote on 2014-01-09:

This bug was fixed in the package matplotlib - 1.3.1-1ubuntu3

---------------
matplotlib (1.3.1-1ubuntu3) trusty; urgency=medium

  [ Tim Lunn ]
  * debian/control: Build depend against tcl/tk 8.6 since this is the default
    for python2.7 now (LP: #1266605)

  [ Julian Taylor ]
  * add python{,3}-tk-dbg build dependency for debug tkagg backend
  * add autopkgtest doing basic testing of a few backends
-- Tim Lunn <email address hidden> Tue, 07 Jan 2014 11:08:52 +1100

Changed in matplotlib (Ubuntu):
status:	New → Fix Released

Revision history for this message

David Murphy (dnamurphy) wrote on 2014-08-20:

I still see this crash (with identical traceback) even after upgrading my 14.04 Xubuntu 64-bit system to tcl/tk 8.6:

python-matplotlib/trusty,now 1.3.1-1ubuntu5 amd64
tcl8.6-dev/trusty,now 8.6.1-4ubuntu1 amd64
tk8.6-dev/trusty,now 8.6.1-3ubuntu2 amd64

Suggestions?

Revision history for this message

Julian Taylor (jtaylor) wrote on 2014-08-20:

are you sure you are using the packaged matplotlib and not a local installation?
run

python -c "import matplotlib; print matplotlib"

to see what you are using

Revision history for this message

David Murphy (dnamurphy) wrote on 2014-08-20:

#10

It's the packaged one:

Revision history for this message

Sandro Tosi (morph-debian) wrote on 2014-08-20:

#11

David, it is not :) no package will ever install something in /usr/local so it's a custom installation

Revision history for this message

David Murphy (dnamurphy) wrote on 2014-08-20:

#12

Hi Sandro,

Are you sure? After an initial apt-get purge, I checked, and indeed /usr/local/lib/python2.7/dist-packages/matplotlib/ remained in place as you imply. I then moved matplotlib* in the above directory out of the way, and sure enough python then fails to import. When I re-install however, it is placed in exactly this directory:

david@spengler:~$ python -c "import matplotlib; print matplotlib"
Traceback (most recent call last):
File "<string>", line 1, in <module>
ImportError: No module named matplotlib

david@spengler:~$ sudo apt-get install python-matplotlib
Reading package lists... Done
Building dependency tree
Reading state information... Done
The following package was automatically installed and is no longer required:
  libdb5.1-java-jni
Use 'apt-get autoremove' to remove it.
Suggested packages:
  python-excelerator python-matplotlib-doc python-nose python-tornado
  python-traits ttf-staypuft
The following NEW packages will be installed:
  python-matplotlib
0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
Need to get 0 B/1,421 kB of archives.
After this operation, 7,837 kB of additional disk space will be used.
Selecting previously unselected package python-matplotlib.
(Reading database ... 509799 files and directories currently installed.)
Preparing to unpack .../python-matplotlib_1.3.1-1ubuntu5_amd64.deb ...
Unpacking python-matplotlib (1.3.1-1ubuntu5) ...
Setting up python-matplotlib (1.3.1-1ubuntu5) ...
Processing triggers for python-support (1.0.15) ...

david@spengler:~$ python -c "import matplotlib; print matplotlib"
<module 'matplotlib' from '/usr/lib/pymodules/python2.7/matplotlib/__init__.pyc'>

david@spengler:~$ sudo apt-get purge python-matplotlib
Reading package lists... Done
Building dependency tree
Reading state information... Done
The following package was automatically installed and is no longer required:
libdb5.1-java-jni
Use 'apt-get autoremove' to remove it.
The following packages will be REMOVED:
python-matplotlib*
0 upgraded, 0 newly installed, 1 to remove and 1 not upgraded.
After this operation, 7,837 kB disk space will be freed.
Do you want to continue? [Y/n] Y
(Reading database ... 510097 files and directories currently installed.)
Removing python-matplotlib (1.3.1-1ubuntu5) ...
Processing triggers for python-support (1.0.15) ...

david@spengler:~$ python -c "import matplotlib; print matplotlib"
Traceback (most recent call last):
File "<string>", line 1, in <module>
ImportError: No module named matplotlib

Hi Sandro,

david@spengler:~$ python -c "import matplotlib; print matplotlib"
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ImportError: No module named matplotlib

david@spengler:~$ sudo apt-get install python-matplotlib
Reading package lists... Done
Building dependency tree       
Reading state information... Done
The following package was automatically installed and is no longer required:
  libdb5.1-java-jni
Use 'apt-get autoremove' to remove it.
Suggested packages:
  python-excelerator python-matplotlib-doc python-nose python-tornado
  python-traits ttf-staypuft
The following NEW packages will be installed:
  python-matplotlib
0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
Need to get 0 B/1,421 kB of archives.
After this operation, 7,837 kB of additional disk space will be used.
Selecting previously unselected package python-matplotlib.
(Reading database ... 509799 files and directories currently installed.)
Preparing to unpack .../python-matplotlib_1.3.1-1ubuntu5_amd64.deb ...
Unpacking python-matplotlib (1.3.1-1ubuntu5) ...
Setting up python-matplotlib (1.3.1-1ubuntu5) ...
Processing triggers for python-support (1.0.15) ...

david@spengler:~$ python -c "import matplotlib; print matplotlib"
<module 'matplotlib' from '/usr/lib/pymodules/python2.7/matplotlib/__init__.pyc'>

david@spengler:~$ sudo apt-get purge python-matplotlib
Reading package lists... Done
Building dependency tree       
Reading state information... Done
The following package was automatically installed and is no longer required:
  libdb5.1-java-jni
Use 'apt-get autoremove' to remove it.
The following packages will be REMOVED:
  python-matplotlib*
0 upgraded, 0 newly installed, 1 to remove and 1 not upgraded.
After this operation, 7,837 kB disk space will be freed.
Do you want to continue? [Y/n] Y
(Reading database ... 510097 files and directories currently installed.)
Removing python-matplotlib (1.3.1-1ubuntu5) ...
Processing triggers for python-support (1.0.15) ...

david@spengler:~$ python -c "import matplotlib; print matplotlib"
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ImportError: No module named matplotlib

Revision history for this message

Sandro Tosi (morph-debian) wrote on 2014-08-20:

#13

david@spengler:~$ python -c "import matplotlib; print matplotlib"
<module 'matplotlib' from '/usr/lib/pymodules/python2.7/matplotlib/__init__.pyc'>

/usr/lib is not /usr/local ;)

Revision history for this message

David Murphy (dnamurphy) wrote on 2014-08-20:

#14

Ha - good spot :-)

For some reason, it's a mess, and I have no idea why: I've never installed any python modules except from APT. A purge and re-install does not work either (nothing is installed in /usr/lib/).

I've found that I have to apt-purge the relevant packages, remove all mention of them from /usr/local/lib/python2.7/dist-packages/ and then re-install them.

Perhaps it's a remnant from my recent upgrade, but absolutely no idea how/why!