AMBER Archive (2006)

Subject: RE: AMBER: sander problem

From: Brian Stupi (bstupi15_at_yahoo.com)
Date: Thu Feb 16 2006 - 14:44:11 CST


Hello Amber community,

I am going through the tutorial for Amber
(http://www.rosswalker.co.uk/tutorials/amber_workshop/Tutorial_one/section5.htm)
and have come across a command that Amber is not
finding. The command is process_mdout.perl

Below is an excerpt from the tutorial:

mkdir polyAT_gb_md1_12Acut
mkdir polyAT_gb_md1_nocut
cd polyAT_gb_md1_12Acut
process_mdout.perl ../polyAT_gb_md1_12Acut.out
cd ../polyAT_gb_md1_nocut
process_mdout.perl ../polyAT_gb_md1_nocut.out

The computer error is as follows:

~/amber8/polyAT_gb_md1_nocut$ process_mdout.perl
../polyAT_gb_md1_nocut.out
-bash: process_mdout.perl: command not found

I ran the bugfix.all so Amber should be OK. If anyone
has a suggestion please let me know. Thank you in
advance.

Brian

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