AMBER Archive (2008)

Subject: RE: AMBER: WARNING in readAmberTrajectory(): Set #7918 is corrupted (-)

From: Chris Moth (chris.moth_at_vanderbilt.edu)
Date: Wed Mar 26 2008 - 17:27:35 CDT

If you are using netcdf, the ncdump program in the netcdf directory might
help.

We worked through a problem last year with it:

http://structbio.vanderbilt.edu/archives/amber-archive/2007/3449.php

But yes, I agree that set #7918 is a large number for a single trajectory
input file.

You may be over a 4GB limit

> It seems I can use "more" to view my trajectory, but there are all
> coordinate numbers in trajectory which is hard to read and find where is
> the error frame.
>
>
> -----Original Message-----
> From: owner-amber_at_scripps.edu on behalf of Da-Wei Li
> Sent: Tue 3/25/2008 12:08 PM
> To: amber_at_scripps.edu
> Subject: Re: AMBER: WARNING in readAmberTrajectory(): Set #7918 is
> corrupted (-)
>
> Hi,
>
> Do you use ASCII format? If so, you can use any TEXT editor(for
> example, MS word or an simple "more" command under linux) software to
> check whether there is an error or not. You can also split the file if
> it is because ptraj cannot handle large files (>4G).
>
> Here is the format of amber files: http://amber.scripps.edu/formats.html
>
>
>
> dawei
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