AMBER Archive (2008)

Subject: AMBER: mm_pbsa problem

From: Badry Bursulaya (
Date: Mon Feb 11 2008 - 16:45:29 CST



I attempted to run script to extract coordinates from the
trajectory file ($AMBERHOME/exe/ The snapshots
files came out empty. I then used the input and trajectory files in
$AMBERHOME/src/mm_pbsa/Examples/01_Generate Snapshots (to make sure that
my trajectory is not causing the problem). The outcome was the same -
empty trajectory files. The log file contains no error. I use Amber 9 on
linux cluster.


I would appreciate any hint or help with this matter.




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