[Bug 853466] New: pydoc numpy scipy segmentation fault

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[Bug 850478] New: When you install...

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3 Dec 2013 3 Dec '13

21:05

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c0 Summary: pydoc numpy scipy segmentation fault Classification: openSUSE Product: openSUSE 13.1 Version: Final Platform: x86-64 OS/Version: openSUSE 13.1 Status: NEW Severity: Normal Priority: P5 - None Component: Development AssignedTo: bnc-team-screening@forge.provo.novell.com ReportedBy: cshorler@googlemail.com QAContact: qa-bugs@suse.de Found By: --- Blocker: --- Created an attachment (id=570051) --> (http://bugzilla.novell.com/attachment.cgi?id=570051) backtrace User-Agent: Mozilla/5.0 (X11; Linux x86_64; rv:25.0) Gecko/20100101 Firefox/25.0 I think this is probably an issue with numpy / scipy looking at the backtrace. I'm using keyword look-up (see below), I've tested with several words. Reproducible: Always Steps to Reproduce: 1. (guessing) install numpy / scipy 2. at the shell: $ pydoc -k hadamard .. Actual Results: segmentation fault Expected Results: results list, no segmentation -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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5 Dec 5 Dec

02:57

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c Xiyuan Liu changed: What |Removed |Added ---------------------------------------------------------------------------- CC| |xyliu@suse.com AssignedTo|bnc-team-screening@forge.pr |jmatejek@suse.com |ovo.novell.com | -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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3 Jan 3 Jan

13:31

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c1 Jan Matejek changed: What |Removed |Added ---------------------------------------------------------------------------- Status|NEW |NEEDINFO InfoProvider| |cshorler@googlemail.com --- Comment #1 from Jan Matejek 2014-01-03 13:31:51 UTC --- i cannot reproduce this please post your versions of python-numpy, python-scipy and python-base. or try again with updated packages, maybe this is solved now? also, are you using only Factory repo, or other buildservice repos too? -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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4 Jan 4 Jan

18:29

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c2 Christopher HORLER changed: What |Removed |Added ---------------------------------------------------------------------------- Status|NEEDINFO |NEW InfoProvider|cshorler@googlemail.com | --- Comment #2 from Christopher HORLER 2014-01-04 18:29:12 UTC --- I'm not using Factory on this machine - enabled repositories are attached. package versions (the system appears to be up-to-date). chorler@linux-foxtrot:~> zypper se -i -s '/python-(numpy|scipy|base)/' Loading repository data... Reading installed packages... S | Name | Type | Version | Arch | Repository --+--------------------------+---------+--------------+--------+-------------------- i | python-base | package | 2.7.5-8.3.1 | x86_64 | openSUSE-13.1-1.3 i | python-base-debuginfo | package | 2.7.5-8.3.1 | x86_64 | openSUSE-13.1-Debug i | python-numpy | package | 1.7.1-4.1.4 | x86_64 | openSUSE-13.1-1.3 i | python-numpy-debuginfo | package | 1.7.1-4.1.4 | x86_64 | openSUSE-13.1-Debug i | python-numpy-debugsource | package | 1.7.1-4.1.4 | x86_64 | openSUSE-13.1-Debug i | python-numpydoc | package | 1.7.1-4.1.4 | noarch | openSUSE-13.1-1.3 i | python-scipy | package | 0.12.0-3.1.3 | x86_64 | openSUSE-13.1-1.3 i | python-scipy-debuginfo | package | 0.12.0-3.1.3 | x86_64 | openSUSE-13.1-Debug -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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18:31

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c3 --- Comment #3 from Christopher HORLER 2014-01-04 18:31:10 UTC --- Created an attachment (id=573295) --> (http://bugzilla.novell.com/attachment.cgi?id=573295) zypper repos and urls -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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18:40

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c4 --- Comment #4 from Christopher HORLER 2014-01-04 18:39:59 UTC --- The CPU in this machine is an AMD E-450. -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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9 Jan 9 Jan

13:45

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c5 Jan Matejek changed: What |Removed |Added ---------------------------------------------------------------------------- CC| |toddrme2178@gmail.com --- Comment #5 from Jan Matejek 2014-01-09 13:45:43 UTC --- hmm, this is the same versions that I have. adding Todd R, who maintains the package in BuildService. Todd, any ideas about this? Christopher, please try if this command triggers the segfault: python -c "from scipy.fftpack import _fftpack" -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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10 Jan 10 Jan

18:58

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c6 --- Comment #6 from Christopher HORLER 2014-01-10 18:58:25 UTC --- Yes, unfortunately that also crashes. Here's some potentially useful information (please excuse line breaking): chorler@linux-foxtrot:~> python -v -c 'import PyKDE4; import scipy.fftpack._fftpack' 2>&1 | grep -E 'import[ ]' | awk '{print $1, $2}' | uniq > test.py chorler@linux-foxtrot:~> python test.py Segmentation fault chorler@linux-foxtrot:~> python -v -c 'import scipy.fftpack._fftpack' 2>&1 | grep -E 'import[ ]' | awk '{print $1, $2}' | uniq > test_ok.py chorler@linux-foxtrot:~> python test_ok.py chorler@linux-foxtrot:~> diff -u test_ok.py test.py --- test_ok.py 2014-01-10 18:48:51.050697334 +0000 +++ test.py 2014-01-10 18:48:29.735568976 +0000 @@ -30,6 +30,8 @@ import _codecs import encodings.aliases import encodings.utf_8 +import PyKDE4 +import DLFCN import scipy import __future__ import numpy @@ -167,10 +169,3 @@ import scipy.fftpack import scipy.fftpack.fftpack_version import scipy.fftpack.basic -import scipy.fftpack._fftpack -import atexit -import scipy.fftpack.pseudo_diffs -import scipy.fftpack.convolve -import scipy.fftpack.helper -import numpy.dual -import scipy.fftpack.realtransforms chorler@linux-foxtrot:~> -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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19:00

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c7 --- Comment #7 from Christopher HORLER 2014-01-10 19:00:54 UTC --- chorler@linux-foxtrot:~> python -c 'import PyKDE4; import scipy.fftpack._fftpack' Segmentation fault -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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19:11

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c8 --- Comment #8 from Christopher HORLER 2014-01-10 19:11:07 UTC --- chorler@linux-foxtrot:~> rpm -qf /usr/lib64/python2.7/site-packages/PyKDE4/__init__.py python-kde4-4.11.3-42.4.x86_64 Do you have the above installed? Maybe it helps to reproduce the problem. -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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19:13

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c9 --- Comment #9 from Christopher HORLER 2014-01-10 19:13:35 UTC --- (In reply to comment #6)

...

Yes, unfortunately that also crashes.

Apologies I mean - That does NOT crash! -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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13 Jan 13 Jan

16:08

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c10 Jan Matejek changed: What |Removed |Added ---------------------------------------------------------------------------- Status|NEW |ASSIGNED --- Comment #10 from Jan Matejek 2014-01-13 16:08:19 UTC --- yes, this is helpful. here's a nice and small crasher script: ---- 8< ---- import sys, DLFCN sys.setdlopenflags(DLFCN.RTLD_NOW|DLFCN.RTLD_GLOBAL) import scipy.fftpack._fftpack ---- 8< ---- Apparently, the _fftpack module doesn't like to load with these dlopen() flags. Given that "RTLD_NOW" specifies that the relocations should be performed immediately (as opposed to when needed), this probably means that the module would crash sooner or later anyway. -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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16:17

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c11 --- Comment #11 from Jan Matejek 2014-01-13 16:17:18 UTC --- this seems to be the root cause: https://github.com/numpy/numpy/pull/3014 -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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14 Jan 14 Jan

18:57

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c12 --- Comment #12 from Jan Matejek 2014-01-14 18:57:31 UTC --- the problem is fixed in Factory versions of packages, so if you can use NumPy and SciPy from the devel:languages:python repository, that should solve your problem. otherwise, i'd ask you to test with packages from my repository, which should soon appear here: http://download.opensuse.org/repositories/home:/matejcik:/branches:/openSUSE... this version of SciPy solves the crash for me. I'll see if I can push it as an update to 13.1 -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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22:21

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c13 --- Comment #13 from Christopher HORLER 2014-01-14 22:21:43 UTC --- I just tested with packages from your repository - the bug appears to be fixed. Thanks for your help! Chris -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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7 Mar 7 Mar

15:34

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c14 Jan Matejek changed: What |Removed |Added ---------------------------------------------------------------------------- Status|ASSIGNED |NEEDINFO InfoProvider| |maint-coord@suse.de --- Comment #14 from Jan Matejek 2014-03-07 15:33:59 UTC --- request #225092 submitted Maintenance, if you accept this, please also make sure that we rebuild python-scipy (no source changes) and send out the rebuilt package as well -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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15:38

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c Marcus Meissner changed: What |Removed |Added ---------------------------------------------------------------------------- InfoProvider|maint-coord@suse.de |maintenance@opensuse.org -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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16:00

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c15 --- Comment #15 from Bernhard Wiedemann 2014-03-07 17:00:32 CET --- This is an autogenerated message for OBS integration: This bug (853466) was mentioned in https://build.opensuse.org/request/show/225092 13.1 / python-numpy -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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10 Mar 10 Mar

09:11

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c16 Benjamin Brunner changed: What |Removed |Added ---------------------------------------------------------------------------- Status|NEEDINFO |ASSIGNED InfoProvider|maintenance@opensuse.org | --- Comment #16 from Benjamin Brunner 2014-03-10 10:11:15 CET --- Thanks for your submission. I started the update and will add the python-scipy package to the running incident. -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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18 Mar 18 Mar

09:58

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c17 Benjamin Brunner changed: What |Removed |Added ---------------------------------------------------------------------------- Status|ASSIGNED |RESOLVED Resolution| |FIXED --- Comment #17 from Benjamin Brunner 2014-03-18 10:58:12 CET --- Update released for openSUSE 13.1. Resolved fixed. -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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10:04

New subject: [Bug 853466] pydoc numpy scipy segmentation fault

https://bugzilla.novell.com/show_bug.cgi?id=853466 https://bugzilla.novell.com/show_bug.cgi?id=853466#c18 --- Comment #18 from Swamp Workflow Management 2014-03-18 10:04:48 UTC --- openSUSE-RU-2014:0392-1: An update that has one recommended fix can now be installed. Category: recommended (low) Bug References: 853466 CVE References: Sources used: openSUSE 13.1 (src): python-numpy-1.7.1-4.4.1, python-numpy-doc-1.7.1-4.4.2, python-scipy-0.12.0-3.3.1 -- Configure bugmail: https://bugzilla.novell.com/userprefs.cgi?tab=email ------- You are receiving this mail because: ------- You are on the CC list for the bug.

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[Bug 853466] New: pydoc numpy scipy segmentation fault

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