[gmx-users] how to direct log file correctly?

[Albert]

Hi Justin:

  thanks for reply.

   I redirect it by  command:

mpirun -np 2 mdrun_mpi -v -s md.tpr -c md.gro -x md.xtc -g md.log > md.info

However the information is still in my terminal screen instead of 
md.info file. It generate a md.info file, but it it is empty.

I also try to use command:

mpirun -np 2 mdrun_mpi -v -s md.tpr -c md.gro -x md.xtc -g md.log & > 
md.info

but it said:

Invalid null command.


thanks a lot
Albert



On 04/17/2013 05:33 PM, Justin Lemkul wrote:
>
>
> On 4/17/13 11:30 AM, Albert wrote:
>> Hello:
>>
>>   I found that each time I submit gromacs job in GPU workstation, the 
>> log file
>> always in my terminal screen, like:
>>
>> imb F  1% step 13700, will finish Wed Apr 17 17:57:20 2013
>> imb F  1% step 13800, will finish Wed Apr 17 17:57:20 2013
>> imb F  0% step 13900, will finish Wed Apr 17 17:57:20 2013
>> imb F  0% step 14000, will finish Wed Apr 17 17:57:20 2013
>> imb F  1% step 14100, will finish Wed Apr 17 17:57:19 2013
>> imb F  0% step 14200, will finish Wed Apr 17 17:57:19 2013
>> imb F  0% step 14300, will finish Wed Apr 17 17:57:19 2013
>> imb F  0% step 14400, will finish Wed Apr 17 17:57:19 2013
>>
>>
>> I am using command:
>>
>> mpirun -np 2 mdrun_mpi -v -s nvt.tpr -c nvt.gro -g nvt.log -x nvt.xtc
>> grompp_mpi -f npt1.mdp  -c nvt.gro -p topol.top -o heavy.tpr -n
>> mpirun -np 2 mdrun_mpi -v -s heavy.tpr -c heavy.gro -x heavy.xtc -g 
>> 1000.log
>>
>>
>>
>> I am just wondering how can we direct the log file correctly? 
>> Meanwhile tho job
>> won't have any problem going to next step (I am running all the steps 
>> in one
>> script).
>>
>
> You're only getting that output because you're enabling verbose mode 
> with -v. If you don't want that information, don't use -v. If you do 
> want it, but just want it written to a file, redirect it using 
> standard command line redirection (Google is your friend).
>
> -Justin
>