sklearn is broken in Ubuntu 17.10 (undefined symbol: PyFPE_jbuf)

[Michael Nagel]

I cannot import sklearn as demonstrated below

mnagel@pin:~$ cat sklearndemo.py
import sklearn
import sklearn.linear_model
print("hello world")

mnagel@pin:~$ /usr/bin/python3.6 sklearndemo.py
Traceback (most recent call last):
  File "sklearndemo.py", line 2, in <module>
    import sklearn.linear_model
  File "/usr/lib/python3/dist-packages/sklearn/linear_model/__init__.py", line 12, in <module>
    from .base import LinearRegression
  File "/usr/lib/python3/dist-packages/sklearn/linear_model/base.py", line 32, in <module>
    from ..utils.extmath import safe_sparse_dot
  File "/usr/lib/python3/dist-packages/sklearn/utils/extmath.py", line 26, in <module>
    from .sparsefuncs_fast import csr_row_norms
ImportError: /usr/lib/python3/dist-packages/sklearn/utils/sparsefuncs_fast.cpython-36m-x86_64-linux-gnu.so: undefined symbol: PyFPE_jbuf

ProblemType: Bug
DistroRelease: Ubuntu 17.10
Package: python3-sklearn 0.18-5build2
ProcVersionSignature: Ubuntu 4.12.0-12.13-generic 4.12.8
Uname: Linux 4.12.0-12-generic x86_64
NonfreeKernelModules: nvidia_uvm nvidia_drm nvidia_modeset nvidia
ApportVersion: 2.20.7-0ubuntu1
Architecture: amd64
CurrentDesktop: X-Cinnamon
Date: Fri Sep 8 17:30:39 2017
InstallationDate: Installed on 2017-09-01 (6 days ago)
InstallationMedia: Ubuntu 17.10 "Artful Aardvark" - Alpha amd64 (20170831)
PackageArchitecture: all
SourcePackage: scikit-learn
UpgradeStatus: No upgrade log present (probably fresh install)

[Michael Nagel (nailor)]

already fixed with https://launchpad.net/ubuntu/+source/scikit-learn/0.19.0-1build1 from poposed

[Hans Joachim Desserud (hjd)]

Thanks for taking your time to report this issue and help making Ubuntu better.

I can confirm the same error message when following your attached example with 0.18-5build2 on Ubuntu Artful. I haven't tested with the package from proposed, but that seems to have build failures on some architectures which presumably will need to be resolved before it migrates to the release pocket.

[Michael Nagel (nailor)]

I don't know why it would fail builds on some archs as it is a no change rebuild specifically to resolve the issue mentioned here. But I can confirm that the non-failing amd64 build actually works for me. Also see https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=873791#122

[Hans Joachim Desserud (hjd)]

See also bug 1717489 for more details (and hopefully progress) on the build failures.

[FranciscoLima (faclsp)]

Hi!
I'm also experiencing the same error with kivy.App

ImportError: /usr/lib/python3/dist-packages/kivy/_event.cpython-36m-x86_64-linux-gnu.so: undefined symbol: PyFPE_jbuf

With the latest upgrade, apps with Kivy have stopped working.

Thanks!

[Michael Nagel (nailor)]

@faclsp: it should afffect almost everything depending on numpy. check if the issue is solved with https://launchpad.net/ubuntu/+source/kivy/1.9.1-1build3/+build/13337650

[FranciscoLima (faclsp)]

@nailor: Thanks! qivy for python3 still does not work, but for python it's ok.

[Hans Joachim Desserud (hjd)]

Now that Ubuntu 17.10 has been released, I decided to retest this. I see that the available version of scikit-learn in the archive is 0.19.0-1build1 and the example mentioned in the description now works, as when the package was in -proposed. I therefore believe this issue can be marked as fixed.

If the similar issue with Kivy is still present, I believe that should be reported as a separate issue.