[gmx-users] glibc error with g_density (only for some cases)

[David van der Spoel]

Arun kumar wrote:
> Dear David,
>                  My gcc compiler version is 4.0.1.  Is there any
> problem with this version??
> 
> On 5/18/07, David van der Spoel <spoel at xray.bmc.uu.se> wrote:
>> Arun kumar wrote:
>> > Hai Mark..
>> >              Thanks for your suggestions. I will think about my
>> > problem clearly and will post a message with much care so that every
>> > one can easily read. Also I can get a response.
>> >
>> >               About g_density I will check once again the log file
>> > and post the reply here. But I think there is nothing went wrong in my
>> > simulations in between 500 and 1500 time steps. I am able to evaluate
>> > all properties for those frames also. Anyway I will check once again.
>> >
>> > Thanks and regards
>> > Arun Kumar
>> >
>> > On 5/18/07, Mark Abraham <Mark.Abraham at anu.edu.au> wrote:
>> >> Arun kumar wrote:
>> >> > Dear gmx-users,
>> >> >                        I want to discuss and understand about an
>> >> > error I am getting only at times.... I am simulating a DPPC double
>> >> > bilayer phase(got the coordinates from Dr Tieleman's website). I 
>> used
>> >> > genbox  -cs to get double bilayer. Then i started simulations
>> >> > normally.
>> >> >
>> >> > When I use   g_density -b 500  I get the following error
>> >> >
>> >> > *** glibc detected *** free(): invalid next size (normal):
>> >> > 0x0000000000713260 *** Aborted
>> >> >
>> This is either a compilation problem or a bug, but most likely the
>> first. Did you use gcc 4.1.x by any chance? That compiler is broken.
>>
>>

gcc 4.0.1 should be fine as far as I know. You are welcome to submit a 
bugzilla
with input that reproduces the problem.


-- 
David.
________________________________________________________________________
David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++