AMBER Archive (2002)

Subject: Re: trajectory problem?

From: David Case (case_at_scripps.edu)
Date: Thu Jul 25 2002 - 00:22:57 CDT

On Wed, Jul 24, 2002, deepak rangaswamy wrote:
>
> I have run production run for a protein-DNA complex.
> The analysis of trajectory file through moilview shows
> error after reading some steps of dynamics. Waht could
> be the problem for this error. Could anyone help me in
> sorting out this problem.
>

Some suggestions for making posts to this mailing list more effective
in getting help:

(1) Ask yourself if you are providing enough information to allow anyone
to possibly help. Saying "moilview shows error" is not very informative;
(and there have been a number of similar posts recently, which is why
I am "picking" on this one). What error? What were you trying to do?
What was the exact symptom or error message?

(2) Indicating that you have made a good-faith effort to debug the problem
yourself makes people more willing to spend *their* time to help out.
For example: have you successfully viewed other trajectories? other
trajectories that were made in a similar fashion? Did you try to truncate
the trajectory (since you imply that the first few steps seem OK)? have
you looked at the file with a text editor to see if there is anything
obviously amiss?

I know it's a little unfair to be so harsh on this particular question,
and I apologize if you feel put upon. So keep the above points in mind,
and pretend I had more politely said "please send more details about
your problem."

..regards...dac

==================================================================
David A. Case | e-mail: case_at_scripps.edu
Dept. of Molecular Biology, TPC15 | fax: +1-858-784-8896
The Scripps Research Institute | phone: +1-858-784-9768
10550 N. Torrey Pines Rd. | home page:
La Jolla CA 92037 USA | http://www.scripps.edu/case
==================================================================