[gmx-users] GROMACS compilation problem

[Erik Lindahl]

Hi,

Unfortunately that's exactly the one :-)

You can search the mailing list online for details, but there's a  
post from 20070323 where Chris Neale reported success after  
downgrading to cc (GCC) 3.3.6 (Ubuntu 1:3.3.6-13ubuntu2). No  
guarantees though, since he didn't seem to have exactly the same  
problem.

Cheers,

Erik


On Apr 23, 2007, at 5:42 PM, Daniel Rigden wrote:

> Hi Erik
>
> Thanks for the reply.  Yes, I get this
>
> cc (GCC) 4.1.2 20060928 (prerelease) (Ubuntu 4.1.1-13ubuntu5)
> Copyright (C) 2006 Free Software Foundation, Inc.
> This is free software; see the source for copying conditions.   
> There is
> NO
> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR
> PURPOSE.
>
> Thanks
>
> Daniel
>
> On Mon, 2007-04-23 at 17:37 +0200, Erik Lindahl wrote:
>> Hi Daniel,
>>
>> Could you run
>>
>> cc --version
>>
>> and post the result?  Apparently some new Linux distributions are
>> shipping with a buggy prerelease of gcc.
>>
>> Cheers,
>>
>> Erik
>>
>> On Apr 23, 2007, at 5:21 PM, Daniel Rigden wrote:
>>
>>> Dear all
>>>
>>> I'm trying to compile the latest GROMACS 3.3.1 on the latest Ubuntu
>>> Linux.  Due to some fftw installation issue I used
>>>
>>> ./configure --with-fft=fftpack
>>> make
>>> make install
>>>
>>> All seemed to work fine, but any program I try to run now gives me a
>>> crash of this kind
>>>
>>> daniel at adenine: g_clustsize
>>>                          :-)  G  R  O  M  A  C  S  (-:
>>>
>>> *** stack smashing detected ***: g_clustsize terminated
>>> Aborted (core dumped)
>>>
>>> Can anyone help?
>>>
>>> Thanks
>>>
>>> Daniel
>>>
>>>
>>> -- 
>>> Dr Daniel John Rigden                     Tel:(+44) 151 795 4467
>>> School of Biological Sciences             FAX:(+44) 151 795 4406
>>> Room 101, Biosciences Building
>>> University of Liverpool
>>> Crown St.,
>>> Liverpool L69 7ZB, U.K.
>>>
>>>
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>
> -- 
> Dr Daniel John Rigden                     Tel:(+44) 151 795 4467
> School of Biological Sciences             FAX:(+44) 151 795 4406
> Room 101, Biosciences Building
> University of Liverpool
> Crown St.,
> Liverpool L69 7ZB, U.K.
>
>
> _______________________________________________
> gmx-users mailing list    gmx-users at gromacs.org
> http://www.gromacs.org/mailman/listinfo/gmx-users
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