thanks, greatly appreciated.
however, Rev: 2695 (trunk) did still result in the segmentation fault ...
is it located in another branch?
thanks
frido
On Tue, Apr 28, 2009 at 11:56 PM, Daniel Russel <> wrote:
> It should be fixed in svn. There was a problem with how the python wrappers
> were built with build=fast.
>
> On Tue, Apr 28, 2009 at 2:30 PM, Daniel Russel <> wrote:
>>
>> I can reproduce this (well, actually I get lots of crashees with tests and
>> fast builds, not just this).
>> I'll try to figure out what is up.
>>
>> BTW the 'release' flag was replaced by build='release'
>>
>> On Tue, Apr 28, 2009 at 12:31 PM, Friedrich Foerster
>> <> wrote:
>>>
>>> calgary 200% ${IMP}/bin/imppy.sh ${MODINSTALLSVN}/bin/modpy.sh python
>>> modules/em/test/test_calc_cc/test_correlation.py
>>> Initializing key table with index 8974343
>>> Initializing key table with index 90784334
>>> Segmentation fault
>>>
>>> should be reproducible on your machines if you compile with
>>> build="fast" and release=1
>>>
>>> cheers
>>>
>>> frido
>>>
>>> On Tue, Apr 28, 2009 at 4:48 PM, Keren Lasker <> wrote:
>>> > frido - can you send the python lines you use to run the procedure ?
>>> > On Apr 28, 2009, at 7:44 AM, Friedrich Foerster wrote:
>>> >
>>> >> i recompiled the code taking out build="fast". then the unit tests
>>> >> actually work. however, imp is way too slow to do any serious
>>> >> calculations
>>> >> with the default-whatever-it-does.
>>> >> apparently, what is happening is that the parameter setting in
>>> >> SampledDensityMap::resample fails. when the code tries to use the
>>> >> unset
>>> >> pointers, the unit test fails with a segmentation fault.
>>> >> it would be great if an imp expert could look into that.
>>> >>
>>> >> thanks
>>> >>
>>> >> frido
>>> >>
>>> >>
>>> >> On Apr 28, 2009, at 4:11 PM, Ben Webb wrote:
>>> >>
>>> >>> Friedrich Foerster wrote:
>>> >>>>
>>> >>>> however, currently IMP.em/EMBED is not working anymore, at least for
>>> >>>> me. the essential unit test test_em_fit.py does not work on my
>>> >>>> machine. apparently, the parameter initialization does not work. the
>>> >>>> test crashes with a segmentation fault.
>>> >>>
>>> >>> That's odd - it works just fine here on all of our test machines. You
>>> >>> should try a fresh checkout - perhaps something got messed up in your
>>> >>> copy of IMP. If that still doesn't work, build with 'scons
>>> >>> build=debug'
>>> >>> then run the test through gdb to figure out where it's crashing. What
>>> >>> kind of machine are you running on?
>>> >>>
>>> >>> Ben
>>> >>> --
>>> >>> http://salilab.org/~ben/
>>> >>> "It is a capital mistake to theorize before one has data."
>>> >>> - Sir Arthur Conan Doyle
>>> >>> _______________________________________________
>>> >>> IMP-dev mailing list
>>> >>>
>>> >>> https://salilab.org/mailman/listinfo/imp-dev
>>> >>>
>>> >>
>>> >> --
>>> >>
>>> >> Friedrich Foerster
>>> >> Max-Planck Institut fuer Biochemie
>>> >> Am Klopferspitz 18
>>> >> D-82152 Martinsried
>>> >>
>>> >> Tel: +49 89 8578 2651
>>> >> Fax: +49 89 8578 2641
>>> >>
>>> >>
>>> >>
>>> >> www.tomotronic.org
>>> >>
>>> >>
>>> >>
>>> >>
>>> >>
>>> >>
>>> >> _______________________________________________
>>> >> IMP-dev mailing list
>>> >>
>>> >> https://salilab.org/mailman/listinfo/imp-dev
>>> >
>>> > _______________________________________________
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>>> >
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>>> >
>>> >
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>>>
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>>
>
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