[Gate-users] Problem with 'std::bad_alloc'

[David Boersma]

Hi Michał,

On 2016-01-13 07:04, Michal Knap wrote:
> Hi David,
> I have only one version of Gate and Geant4 installed - Gate v7.0 and
> Geant4.9.6.p04.
>
> I successfully  run benchmark simulation - benchmarkSPECT, with or
> without visualization.
>
> So it's somthing with my code i think. What can i disable/enable to fix
> this bug?

If there is indeed something wrong with your code then we can only help 
you by looking at your code.

So, as I wrote in my previous mail, it would be nice if you could make a 
short and strongly simplified version of your macro which still crashes 
in the same way. Preferably it only uses input data from the examples 
and benchmarks. E.g. you define only a very crude geometry and a gamma 
source, and a number of primaries, no visualization. If that throws the 
same bad_alloc exception, then please send that to us, we can try to 
reproduce and tell you what's wrong. Of course it is possible that the 
problem disappears after you take out certain parts of the macro. If you 
can nail it down to one particular line or set of lines that makes the 
difference between crashing and not crashing, then quote those lines to 
us. That is less helpful the first option, but could still provide a hint.

David B.


>
> Best regards
> Michał Knap
>
>
> 18:11 wtorek, 2016-1-12, David Boersma <david.boersma at physics.uu.se>
> napisał(a):
>
>
> Hi Michał,
>
> Some more simple questions:
>
> * Can you run macros from the example directory successfully, or do some
> of them result in this same error?
>
>
> * Do you have multiple versions of Geant4 and/or Root installed? If yes,
> could you check with the following command:
>
> ldd $(which Gate)
>
> that your Gate executable gets indeed linked to the same versions as the
> ones you configured during installation of Gate? If the versions do not
> match: then fix your environment, or reinstall Gate (from scratch).
>
>
>
> If these simple questions do not help, then I think the next step is to
> make a minimalistic version of your macro that demonstrates the error
> you are seeing and post it here on the list, so that other people have a
> chance to reproduce this problem. Please also specify how you run the
> Gate command (with which options).
>
> HTH,
> David Boersma
>
> Den 12/01/2016 kl. 17:35, skrev Michal Knap:
>  > Hi David,
>  > I checked you idea but i use only 50-60% RAM memory.
>  > While i'm running simulation i do not use any other apps.
>  > Even browser is closed.
>  >
>  > I have intel i5 vPRO, 8GB RAM, 120 GB SSD
>  > Ubuntu 14.04 LTS, Geant4.9.6.p04,Gate7.0,Root 5.34.34
>  >
>  > Kind regards
>  >
>  >
>  > 17:01 wtorek, 2016-1-12, David Boersma <david.boersma at physics.uu.se
> <mailto:david.boersma at physics.uu.se>>
>  > napisał(a):
>  >
>  >
>  >
>  >
>  > Hi Michał,
>  >
>  > My first guess would be a memory problem. Could you check with some
>  > resource monitor ("top" or "htop" on linux, "Activity Monitory" on
>  > MacOSX) how much RAM is used on your machine, by which programs?
>  >
>  > It could be that other programs than GATE (e.g. a web browser) are using
>  > so much RAM that there is not enough available for your GATE
>  > application. Then this is easily solved by quitting those other programs.
>  >
>  > It could be that you configured GATE too optimistically, e.g. using a
>  > scoring volume with too many voxels. Then you should either use a more
>  > modest configuration, or run on a bigger machine.
>  >
>  > There are many other possible causes, but these are the easiest ones, I
>  > can think of. It would be good if you could tell us whether these are
>  > already ruled out.
>  >
>  > Also: when reporting problems and asking for help, it could be helpful
>  > if you would add some basic specs about the OS (+version) and the
>  > hardware (in particular how much RAM your have). Which version of GATE
>  > are you using, with which version of Geant4? How did you install it? Did
>  > you install it recently or long ago?
>  >
>  > HTH,
>  > David
>  >
>  > Den 12/01/2016 kl. 15:55, skrev Michal Knap:
>  >  > Hi All,
>  >  > As i'm trying to simulate a minigammacamera i'm getting this error
>  > message.
>  >  > I still do not know how to fix this.
>  >  > Can anybody know what is wrong?
>  >  > //
>  >  > /[Acquisition-0] Slice 0 from 0 to 37.5 s [slice=37.5 s], final
> stop at
>  >  > 150 s./
>  >  > /terminate called after throwing an instance of 'std::bad_alloc'/
>  >  > /  what():  std::bad_alloc/
>  >  > /Przerwane (core dumped)/
>  >  > /
>  >  > /
>  >  > I'll be very thankful for any help.
>  >  >
>  >  > Thanks in advance
>  >  >
>  >  > Kind regards
>  >  > Michał Knap
>  >
>  >  >
>  >  >
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