[Chimera-users] error running large iterative script (return code 3)

[Eric Pettersen]

What version of Chimera are you running?

--Eric

                         Eric Pettersen
                         UCSF Computer Graphics Lab
                         http://www.cgl.ucsf.edu


On Dec 14, 2009, at 10:33 PM, Sumitro Harjanto wrote:

> Hi,
>
> I was trying to run the following script (below), which calculates  
> RMSDs between 39 pdb models. Total iteration will be 741 with about  
> 3000 match commands. After it has run for about 10 mins chimera will  
> crash with an error: Chimera failed abnormally; the exit code was 3.  
> I've printed the debug lines below the script:
>
> Any suggestions..?
>
> Cheers,
>
> Sumitro
>
> --------------------------------------------------------
>
> open d:\result\pdb\1B0G.pdb
>
> open d:\result\pdb\1DUZ.pdb
>
> match #0:1-9.C at ca #1:1-9.C at ca
>
> match #0:1-9.C at n,ca,c,o #1:1-9.C at n,ca,c,o
>
> match #0:1-2.C,8-9.C at ca #1:1-2.C,8-9.C at ca
>
> match #0:1-2.C,8-9.C at n,ca,c,o #1:1-2.C,8-9.C at n,ca,c,o
>
> close #1
>
> open d:\result\pdb\1EEY.pdb
>
> match #0:1-9.C at ca #1:1-9.C at ca
>
> match #0:1-9.C at n,ca,c,o #1:1-9.C at n,ca,c,o
>
> match #0:1-2.C,8-9.C at ca #1:1-2.C,8-9.C at ca
>
> match #0:1-2.C,8-9.C at n,ca,c,o #1:1-2.C,8-9.C at n,ca,c,o
>
> close #1
>
> open d:\result\pdb\1EEZ.pdb
>
> match #0:1-9.C at ca #1:1-9.C at ca
>
> match #0:1-9.C at n,ca,c,o #1:1-9.C at n,ca,c,o
>
> match #0:1-2.C,8-9.C at ca #1:1-2.C,8-9.C at ca
>
> match #0:1-2.C,8-9.C at n,ca,c,o #1:1-2.C,8-9.C at n,ca,c,o
>
> close #1
>
> open d:\result\pdb\1HHG.pdb
>
> match #0:1-9.C at ca #1:1-9.C at ca
>
> match #0:1-9.C at n,ca,c,o #1:1-9.C at n,ca,c,o
>
> match #0:1-2.C,8-9.C at ca #1:1-2.C,8-9.C at ca
>
> match #0:1-2.C,8-9.C at n,ca,c,o #1:1-2.C,8-9.C at n,ca,c,o
>
> close #1
>
> open d:\result\pdb\1HHI.pdb
>
> match #0:1-9.C at ca #1:1-9.C at ca
>
> match #0:1-9.C at n,ca,c,o #1:1-9.C at n,ca,c,o
>
> match #0:1-2.C,8-9.C at ca #1:1-2.C,8-9.C at ca
>
> match #0:1-2.C,8-9.C at n,ca,c,o #1:1-2.C,8-9.C at n,ca,c,o
>
> close #1
>
> …
>
> …
>
> …
>
> --------------------------------------------------------
>
> initializing general preferences
>
> loading Tix
>
> initializing graphics
>
> create application
>
> loading Pmw
>
> creating main window
>
> creating menus
>
> creating toolbar
>
> creating viewer
>
> initializing OpenGL
>
> initializing preferences
>
> initializing dialogs
>
> initializing COM
>
> initializing extensions
>
> CloneMenu failed inside of MenuAddOrInsert.
>
> This application has requested the Runtime to terminate it in an  
> unusual way.
>
> Please contact the application's support team for more information.
>
> Return code: 3
>
> Press return or enter to to exit
>
>
> --------------------------------------------------------
>
>
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> Chimera-users at cgl.ucsf.edu
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