Re: [AMBER] command problem

From: David A Case <>
Date: Mon, 29 Jan 2018 08:09:44 -0500

On Mon, Jan 29, 2018, SHALJA VERMA wrote:

> When I am using these commands pdb4amber -i HEM_H.pdb -o HEM_H_renum.pdb
> and -i -s 1 to renumber and to finally model the PDB after
> integrating ligand and ions to protein PDB respectively the terminal is
> showing command not found.

Be sure to "source" in your $AMBERHOME directory. This sort of
command should probably be a part of your startup scripts.

To check on things, the outputs of these commands should help:

echo $AMBERHOME # should point to the proper place
echo $PATH # should include $AMBERHOME/bin

If, in fact, "pdb4amber" is not in $AMBERHOME/bin, there something has gone
wrong with your installation. You may need to re-install, paying careful
attention to any error messages.

...good luck...dac

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Received on Mon Jan 29 2018 - 05:30:01 PST
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