[gmx-users] simulation end with Segmentation fault, error message said something about libSystem.B.dylib

[Mark Abraham]

Itamar Kass wrote:
> Hi,
> 
> Lately few of my simulations had ended up with wired output:
> 
> Writing final coordinates.
> step 500000, remaining runtime:     0 s         
> [xn068:94365] *** Process received signal ***
> [xn068:94365] Signal: Segmentation fault (11)
> [xn068:94365] Signal code: Address not mapped (1)
> [xn068:94365] Failing at address: 0x108ee9000
> [xn068:94365] [ 0] 2   libSystem.B.dylib                   
> 0x00000000844e83fa _sigtramp + 26
> [xn068:94365] [ 1] 3   ???                                 
> 0x0000000000801b78 0x0 + 8395640
> [xn068:94365] *** End of error message ***
> 
> 
> In addition, the output files are not usable. We use apple with 10.5 
> (server version) and gromacs (4.0.5) is compiles using 64bit.
> 
> Any idea someone?

What was the command line? What's the end of the .log file? What 
filesystem are you using? Did it fill?

Mark