Hi,
You're not compiling properly for your cluster, which might have different
hardware in different places. Read its docs and talk to your admins.
Mark
On Mon, Sep 18, 2017 at 4:07 AM Vidya R wrote:
> Thank you for your reply.
>
> When I try to run my job in a single processor through qsub co
Thank you for your reply.
When I try to run my job in a single processor through qsub command, (by
feeding the gromacs mdrun command in script file), it says SEGMENTATION
FAULT, CORE DUMPED...
But, when I run my job in login node (which we are not supposed to do), it
works very well...
Can you
Hi,
You're running a thread-MPI version of GROMACS, which is probably not what
you want to do if you're running mpirun. It should work even so, but
whatever quirks exist with SGE are unfortunately between you, its docs and
your cluster's docs and admins :-(
Mark
On Sun, Sep 17, 2017 at 7:23 AM V
https://drive.google.com/file/d/0BxGqxeGwTDLbLWJ5SExDblVhRFU
/view?usp=sharing&ts=59be86ad
On Sun, Sep 17, 2017 at 6:35 PM, Justin Lemkul wrote:
>
>
> On 9/17/17 1:22 AM, Vidya R wrote:
>
>> My log file is provided in the link below
>>
>> Can you please look into it and let me know why the error
On 9/17/17 1:22 AM, Vidya R wrote:
My log file is provided in the link below
Can you please look into it and let me know why the error arises?
I am feeding my commands in SGE cluster. When I run it in my login node,
gmx mdrun -v -deffnm eql runs well
But, through qsub command, (with 8 pro