[gmx-users] strange but true : How to explain and avoid?

[Justin Lemkul]

On 7/8/14, 4:02 PM, Chetan Mahajan wrote:
> Hi Justin,
>
> If it's just gcq, then there is no problem to locate and remove. But as I
> mentioned in one of the emails, there could be any other messages like "Thanx
> for Using GROMACS - Have a Nice Day". So detecting them and manually
> removing them does not seem smooth. I think 2 > stderr.log seems the best
> option.
>

The "Thanx" message only shows up if you've disabled cool quotes, but regardless 
this is another simple grep -v statement.

grep -v "gcq" dump.out | grep -v "Thanx" > dump_clean.out

would take care of both, regardless of cool quotes settings.

-Justin

> Thanks
> Chetan
>
>
> On Tue, Jul 8, 2014 at 11:47 AM, Justin Lemkul <jalemkul at vt.edu> wrote:
>
>>
>>
>> On 7/8/14, 12:44 PM, Chetan Mahajan wrote:
>>
>>> Hi Tsjerk,
>>>
>>> Thanks. I get it. So in verision 4.6.5, adding 2>/dev/null at the end of
>>> the command seems the only way out, since, as I said, I am also getting
>>> greeting messages in addition to gcq quotes. However, adding  2>/dev/null
>>>   will
>>> also suppress unusual errors, if any at all. There does not seem a way out
>>> of this.
>>>
>>>
>> Is there a reason these quotes or messages are causing a problem?  If
>> you're simply dumping to a text file, a simple grep -v "gcq" will get rid
>> of the quotes lines and you can continue doing whatever you were doing
>> before.
>>
>>
>> -Justin
>>
>> --
>> ==================================================
>>
>> Justin A. Lemkul, Ph.D.
>> Ruth L. Kirschstein NRSA Postdoctoral Fellow
>>
>> Department of Pharmaceutical Sciences
>> School of Pharmacy
>> Health Sciences Facility II, Room 601
>> University of Maryland, Baltimore
>> 20 Penn St.
>> Baltimore, MD 21201
>>
>> jalemkul at outerbanks.umaryland.edu | (410) 706-7441
>> http://mackerell.umaryland.edu/~jalemkul
>>
>> ==================================================
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-- 
==================================================

Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 601
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441
http://mackerell.umaryland.edu/~jalemkul

==================================================