Hello Dan
Thanks much for your response.
It is 38 frames, with ~32000 atoms and around 7.5ns. The interesting thing is that this was not a problem until I unplugged my computer and then replugged the machine in a different location. In the new location, when I run scripts (distance scripts) that ran previously without any problems before being unplugged, I now get this new error after I rebooted the system in the new location.
Can rebooting cause problems like this???
Should I re-compile and hope it goes away????
Cheers, Steve
-----Original Message-----
From: Daniel Roe [mailto:daniel.r.roe.gmail.com]
Sent: Sun 9/12/2010 2:31 PM
To: AMBER Mailing List
Subject: Re: [AMBER] memory allocation problem?
Hi,
Have you applied all of the ambertools bugfixes?
If so, could you provide more details on the calculations?
Specifically number of atoms, #'frames read, existence of a box, ptraj
input etc. Thanks.
-Dan
On Sunday, September 12, 2010, Seibold, Stephen <Seibold79.stmary.edu> wrote:
>
> Hello AMBER
>
> I have been using AMBER at another University successfully. I moved my computers to another university,usm, and turned on and starting calculating trajectories with AMBER 11...no problem. However, when I went to analyze them attempting to get distances between two atoms over time I get an error "Warning in transformdistance(): Blowing array; too many frames" and "Safe-malloc: Error in alloc of -8bytes"
>
> I am sending the print out as a log.
>
> Other ptraj packages work well...for example I can get RMSDs.
>
> Please can someone give me some adivce? I am on a linux enterprise 5 OS.
>
> Thanks, Steve
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> http://lists.ambermd.org/mailman/listinfo/amber
>
--
-------------------------
Daniel R. Roe
Postdoctoral Associate
SAS - Chemistry & Chemical Biology
610 Taylor Road
Piscataway, NJ 08854
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Received on Sun Sep 12 2010 - 13:30:03 PDT
