if you really typed
$AMBERHOME/exe/sander -O -i polyAT_vac_md1_12Acut.in -o
polyAT_vac_md1_12Acut.out -c polyAT_vac_init_min.rst -p polyAT_vac.prmtop
-r polyAT_vac_md1_12Acut.rst -x polyAT_vac_md1_12Acut.mdcrd tail -f
polyAT_vac_md1_12Acut.out
then indeed, it is wrong.
everything after sander is READ by sander itself
tail is not something sander understands
Assuming you are running this interactively in your machine, then try
$AMBERHOME/exe/sander -O -i polyAT_vac_md1_12Acut.in -o
polyAT_vac_md1_12Acut.out -c polyAT_vac_init_min.rst -p polyAT_vac.prmtop
-r polyAT_vac_md1_12Acut.rst -x polyAT_vac_md1_12Acut.mdcrd &
note the & at the end
this sends it to background.
THEN you can type
tail -f polyAT_vac_md1_12Acut.out
On 4/8/12 10:28 AM, Aron Broom wrote:
> I'm not sure, but I suspect you can get it working by doing something like
> -o stdout
>
> Then instead of sending the output to the file, it will just print it on
> the screen. If you want both, I'm sure there is a way to get that to
> happen, but I'm not sure these are AMBER specific questions (at least in
> the way I'm answering it), but more linux shell questions.
>
> ~Aron
>
> On Sun, Apr 8, 2012 at 9:10 AM, Acoot Brett<acootbrett.yahoo.com> wrote:
>
>> Dear All,
>>
>> I have tried to use tail, but it does not work
>>
>> I use the following command, is anything wrong?
>> "$AMBERHOME/exe/sander -O -i polyAT_vac_md1_12Acut.in -o
>> polyAT_vac_md1_12Acut.out -c polyAT_vac_init_min.rst -p polyAT_vac.prmtop
>> -r polyAT_vac_md1_12Acut.rst -x polyAT_vac_md1_12Acut.mdcrd tail -f
>> polyAT_vac_md1_12Acut.out"
>>
>> It says tail cannot be recognized.
>>
>> I am looking forward to getting your reply on how to solve the problem.
>>
>> Cheers,
>>
>> Acoot
>>
>>
>> ----- Original Message -----
>> From: Acoot Brett<acootbrett.yahoo.com>
>> To: AMBER Mailing List<amber.ambermd.org>
>> Cc:
>> Sent: Sunday, 8 April 2012 10:13 PM
>> Subject: [AMBER] the command to make the sander running visible
>>
>> Dear All,
>>
>> As for the sander MD step usually takes a long time, it makes the computer
>> looks like dead.
>>
>> Will you please tell me the sander command to show the sander MD process
>> is on going, especially the sander command which indicates how much time
>> left to complete the on-going sander step?
>>
>> Cheers,
>>
>> Acoot
>>
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>
>
>
--
Dr. Adrian E. Roitberg
Professor
Quantum Theory Project, Department of Chemistry
University of Florida
roitberg.ufl.edu
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Received on Sun Apr 08 2012 - 08:00:03 PDT
